import numpy as np
from netCDF4 import Dataset as NetCDFFile
import os
import re
import numpy.ma as ma
# Importing generic tools file 'generic_tools.py'
import generic_tools as gen

####### Contents:
# add_dims: Function to add dimensions from a given netCDF object to another one
# add_globattrs: Function to add global attributes from a given netCDF object to another one
# addvals: Function to add values to a given variable at a given dimension
# add_vars: Function to add variables from a given netCDF object to another one
# attrinvar: Check existence of an attribute in a netCDF variable object
# basicvardef: Function to give the basic attributes to a variable (std_name, long_name, units)
# changevartype: Function to change the type of a variable (when possible)
# chdimname: Changing the name of the dimension
# checkAllValues: Function to check for variables with along all their dimensions with the same value in a file
# checkallvars: Function to check all variables of a file
# checkNaNs: Function to check for NaN values over all variables in a file
# check_times_file: Function to check time-steps of a given file
# chgtimestep: Function to change the values of a given time-step of a variable inside a netCDF for values from a nother file
# chvarname: Changing the name of the variable
# cls_time_information: Classs to provide information about variable time
# compute_deaccum: Function to compute deaccum: deaccumulation of a variable (VAR[t+1]-VAR[t])
# compute_opersvarsfiles: Function to compute opersvarfiles: operation of variables from different files (OPER1.FILE1_VAR1 OPER2.FILE2_VAR2), operations are going to be secuentially made
# compute_opervaralltime: Function to compute opervaralltime: operation of variable successible allover the time-steps
# compute_opervartimes: Function to compute opervartimes: operation of variable for a given sub-set of time-steps
# computevar_model: Function to provide the way to compute a CF-variable providing its name
# compute_tevolboxtraj: Function to compute tevolboxtraj: temporal evolution at a given point along a box following a trajectory
# compute_tevolboxtraj_radialsec: Function to compute tevolboxtraj_radialsec: temporal evolution at a given point along a number of radii at a given frequency following a trajectory
# DataSetSection: Function to get a section (values along a dimension) of a given data-set
# DataSetSection_multidims: Function to get a section (values along multiple dimensions) of a given data-set
# DataSetSection_multivars: Function to get a section (values along multiple variables) of a given data-set
# DatesFiles: Function to find different time values on a series of WRF files in a folder
# DimsLoop: Function to provide the shape of the dimensions which are not selected
# dimToUnlimited: Operation to create an unlimited dimension from an existing one
# dimVar_creation: Function to add a 1D variable with the size of a given dimension in a file
# fattradd: Adding attributes from a reference file
# fgaddattr: Adding global attributes from a reference file
# fdimadd: Adding dimension from another reference file
# field_stats: Function to retrieve statistics from a field
# file_creation: Operation to create a file with one variable with a given set of dimensions
# file_oper_alongdims: Function to operate a file along different dimensions of a variable
# fill_ncvariable_lastdims: Function to fill the last [Nlastdims] dimensions of a variable [varn] from a netCDF object at the other dimensions at [prevdims]
# filter_2dim: Function to filter along 2 dimensions (moving grid-box means of a given size) values of the netCDF file
# flipdim: flips the value following one dimension [Nflipdim]
# fvaradd: Adding variable (and all its attributes and dimensions) from a reference file to a file
# gaddattr: Add a global attribute to a netCDF. Removes previous attribute if it exist
# gaddattrk: Add a global attribute to a netCDF caring about the type. Removes previous attribute if it exist
# genericNCvariable: Class to fake a netCDF varibale
# get_1str_nc: Function to get 1 string value in a netCDF variable as a chain of 1char values
# get_attribute: Function to get an attribute from a netCDF file
# get_namelist_vars: Function to get namelist-like  values ([varname] = [value])
# get_str_nc: Function to get string values in a netCDF variable as a chains of 1char values
# getvalues_lonlat: Function to retrieve the values from the closest grid point to a set of longitude, latitude values
# grattr: Function to read a global atribute
# grmattr: Removing a global attribute
# idims: Give all the dimensions names of a file
# igattrs: Give all the global attributes of a file
# increaseDimvar: Function to increase with 1 dimension an existing variable within a netcdf file. Values of the variable will be repeated along the new dimension
# insert_variable: Function to insert a variable in an existing file
# isgattrs: Give a single global attribute of a file and its type
# isvattrs: Give a single attribute of a variable
# ivars: Give all the variable names of a file
# ivattrs: Give all the attributes of a variable and its type
# load_ncvariable_lastdims: Function to load the last [Nlastdims] dimensions of a variable [varn] from a netCDF object at the other dimensions at [prevdims]
# lonlatProj: Function to compute longitudes and latitudes for a given projection following subroutine calc_resolution_in from ORCHIDEE/src_global/module_InterpWeight
# maskvar: Function to mask a variable using a mask. It is assumed that mask[...,dimM,dimJ,dimK] and var[...,dimM,dimJ,dimK] share the last dimensions
# ModelChar: Class object to determine major characterisitcs of a given model output
# model_characteristics: Functino to provide major characterisitcs of a given model output
# ncreplace: Function to replace something from a netCDF file
# ncstepdiff: Function to compute differencies between time-steps (deacumulate) a netCDF file
# nctype: Function to provide the string for the variable creation in a netCDF file
# netcdf_concatenation: Function to concatenate netCDF files for a given set of variable
# netcdf_fold_concatenation: Function to concatenate netCDF files in a given folder for a given set of variables
# netcdf_fold_concatenation_HMT: Function to concatenate netCDF files in a given folder for a given set of variables giving Header, Middle, Tail for the name files
# operation_alongdims: Function to operate along different dimensions of a variable
# operdim: Function to operate along a series of dimensions
# ovar_onc: Function to copy an object variable to a nother netcdf object
# Partialmap_Entiremap: Function to transform from a partial global map (e.g.: only land points) to an entire one Coincidence of points is done throughout a first guess from fractions of the total domain of search
# Partialmap_EntiremapFor: Function to transform from a partial global map (e.g.: only land points) to an entire one usinf Fortran code
# Partialmap_EntiremapForExact: Function to transform from a partial global map (e.g.: only land points) to an entire one using Fortran code with exact location
# pinterp: Function to vertically interpolate using subroutines from the p_interp.F90 NCAR program
# put_variable_slice: Function to add a variable from a netcdf object to a new one following a slice
# remapnn: Function to remap to the nearest neightbor a variable using projection from another file
# remapnn_old: Function to remap to the nearest neightbor a variable using projection from another fil
# seasmean: Function to compute the seasonal mean of a variable
# sellonlatbox: Function to select a lotlan box from a data-set
# sellonlatboxold: Function to select a lotlan box from a data-set
# sellonlatlevbox: Function to select a lotlan box and a given level from a data-set
# selvar: Function to select a series of variables from a netcdf file. Variables with the values of the associated dimensions will be also retrieved
# set_attribute: Sets a value of an attribute of a netCDF variable. Removes previous attribute value if exists
# set_attributek: Sets a value of an attribute of a netCDF variable with a kind. Removes previous attribute value if exists
# setvar_asciivalues: Function to set de values of a variable with an ASCII file (common Fortran-like format)
# SliceVar: Function to slice a given variable throughout a given list of dimensions
# SliceVarDict: Function to slice a given variable throughout a dictionary
# slice_variable: Function to return a slice of a given variable according to values to its dimensions
# sorttimesmat: Function to sort the time values of a given file
# spacemean: Function to retrieve a space mean series from a multidimensional variable of a file
# SpatialWeightedMean: Function to compute the spatial mean using weights from a netCDF file
# statcompare_files: Python script to statistically compare two different files
# submns: Function to retrieve a series of months from a file
# subyrs: Function to retrieve a series of years from a file
# testvarinfile: Check existence of a variable inside a netCDF file
# TimeInf: Function to print all the information from the variable time
# time_information: Function to provide information about variable time
# timemean: Function to retrieve a time mean series from a multidimensional variable of a file
# timeshiftvar: Function to temporaly shift a number of time-steps a given variable inside a netCDF file
# TimeSplitmat: Function to transform a file with CFtimes to a matrix [Nyear,Nmonth,Nday,Nhour,Nminute,Nsecond]
# uploading_timestep: Function to upload a given time-step of a variable inside a netCDF
# valmod: Function to modify the value of a variable
# valmod_dim: Function to modify the value of a variable at a given dimension and value
# var_3desc: Function to provide std_name, long_name and units from an object variable
# varaddattr: Add an attribute to a variable. Removes previous attribute if it exists
# varaddattrk: Add an attribute to a variable caring about the type
# varaddref: Function to add a variable in an existing file copying characteristics from an existing one
# var_creation: Operation to create a new variable in a file with a given set of dimensions
# variable_inf: Class to provide the information from a given variable
# varinfile: Check existence of a variable inside a netCDF file
# varrmattr: Removing an attribute from a variable
# VarVal_FillValue: Function to transform a given value from a given variable to _FillValue in a netCDF file
# var_dim_dimv: Function to bring back which variables with the values should be use for a given variable
# varDimension: Function to find the variable with the values of a dimension. It is assumed, that given variable
# var_model: Function to provide the way to compute a CF-variable providing its name
# varout: Function when we want to output variable values
# varoutold: Function when we want to output variable values
# varrm: Removing a variable from a file
# vrattr: Function to remove an atribute from a variable
# writing_1str_nc: Function to write 1 string value in a netCDF variable as a chain of 1char values
# writing_str_nc: Function to write string values in a netCDF variable as a chain of 1char values
# WRF_CFlonlat_creation: Function to add a CF-convention longitude/latitude variables in a WRF file
# WRF_CFtime_creation: Function to add a CF-convention time unit in a WRF file
# WRF_CFxtime_creation: Function to add a CF-convention time unit in a WRF file using variable 'XTIME'
# WRF_d0Nref: Function for the generation of an extra WRF domain from a given one

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

class genericNCvariable(object):
    """ Class to fake a netCDF varibale
      d[x/y/z/t]: dimensions of the variable
      dn[x/y/z/t]: name of the dimensions of the variable
    >>> variable = genericNCvariable(5,4,3,2,'lon','lat','pres','time')
    """
    def __init__(self,dx,dy,dz,dt,dnx,dny,dnz,dnt):
        from collections import OrderedDict
        totshape = dt*dz*dy*dx
        dimdict = {dnt: dt, dnz: dz, dny: dy, dnx: dx}

        self.values = np.arange((totshape), dtype=np.float).reshape(dt,dz,dy,dx)        
# Here for a fake netCDF file
#        self.dimensions = OrderedDict(sorted(dimdict.items(), key=lambda t: t[0]))
        self.dimensions = (dnt, dnz, dny, dnx)
        self.shape = (dt, dz, dy, dx)
        self.standard_name = 'general_var'
        self.long_name = 'generic netcdf variable'
        self.units = '-'

    def __getitem__(self, val):
        return self.values[val]

def varinfile(ncf, filen, emsg, vmsg, varn):
    """ Check existence of a variable inside a netCDF file 
    ncf= netCDF object
    filen= file name
    emsg= general error message
    vmsg= message before generic text of inexistence of variable
    varn= variable name
    """
    if not ncf.variables.has_key(varn):
        print emsg
        print '  file "' + filen + '" does not have ' + vmsg + ' variable "' + varn + '" !!'
        print emsg
        ncf.close()
        quit(-1)    

    return

class testvarinfile(object):
    """ Check existence of a variable inside a netCDF file 
    ncf= netCDF object
    filen= file name
    emsg= general error message
    vmsg= message before generic text of inexistence of variable
    varn= variable name
    self.exist= boolean value of existence
    self.message= error message
    """
    def __init__(self, ncf, filen, emsg, vmsg, varn):

        if ncf is None:
            self.exist= None
            self.message = None
        else:
            if not ncf.variables.has_key(varn):
                self.exist = False
                self.message = emsg + '\n' + '  file "' + filen + '" does not have "' + vmsg + '" variable "' + varn + '" !!\n' + \
                  emsg
            else:
                self.exist = True
        return

def attrinvar(varobj, emsg, vmsg, attrn):
    """ Check existence of an attribute in a netCDF variable object
    varobj= netCDF variable object
    emsg= general error message
    vmsg= message before generic text of inexistence of variable
    attrrn= attribute name
    """
    varattrs = varobj.ncattrs()

    if not isInlist(varattrs, attrn):
        print emsg
        print '  variable "' + varobj.name + '" does not have attribute ' + attrn + '" !!'
        print emsg
        ncf.close()
        quit(-1)    

    return

def valmod(values, ncfile, varn):
    """ Function to modify the value of a variable
    values = modins,[modval1],[...,[modvalN]]
      modins = instruction: 
        'sumc', add [modval1]
        'subc', substraction [modval1]
        'mulc', multiply by [modval1] 
        'divc', divide by [modval1] 
        'lowthres': modify all values below [modval1] to [modval2]
        'upthres': modify all values above [modval1] to [modval2]
        'potc': [val] ** [modval1]
    ncfile = netCDF file name
    varn = name of the variable
    """
    fname='valmod'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print valmod.__doc__
        quit()

    vals = values.split(',')
    modins = vals[0]
    modval = float(vals[1])

    if not os.path.isfile(ncfile):
      print errormsg
      print '   ' + fname + ': File "' + ncfile + '" does not exist !!'
      print errormsg
      quit(-1)    

    ncf = NetCDFFile(ncfile,'a')

    if ncf.dimensions.has_key('plev'):
      # removing pressure level from variable name
      varn = re.sub("\d+", "", varn) 

    if not ncf.variables.has_key(varn):
      print errormsg
      print '   ' + fname + ": File '" + ncfile + "' does not have variable '" +     \
        varn + "' !!"
      print errormsg
      ncf.close()
      quit(-1)

    var = ncf.variables[varn]
    varshape = var.shape
    vartype = var.dtype
    Ndims = len(varshape)
    
    varshapevals = list(varshape)
    Nvars = len(varshape)
   
    if not Nvars == 0:
        if Nvars == 1:
            varvals = np.zeros(varshape[0], dtype=vartype) 
        elif Nvars == 2:
            varvals = np.zeros((varshape[0], varshape[1]), dtype=vartype)
        elif Nvars == 3:
            varvals = np.zeros((varshape[1], varshape[2]), dtype=vartype)
        elif Nvars == 4:
            varvals = np.zeros((varshape[2], varshape[3]), dtype=vartype) 
        elif Nvars == 5:
            varvals = np.zeros((varshape[3], varshape[4]), dtype=vartype)
        elif Nvars == 6:
            varvals = np.zeros((varshape[4], varshape[5]), dtype=vartype)
        else:
            print errormsg
            print '  ' + fname + ': variable size ',Nvars,' is not ready!!!!'

# Allocating all the necessary memory (just in case)

        if Nvars <= 2:
            varvals = var[:]
            var[:] = gen.valmodoper(varvals, values)
        elif Nvars == 3:
            for i in range(varshape[0]):
                varvals[:] = var[i,:,:]
                var[i,:,:] = gen.valmodoper(varvals, values)
        elif Nvars == 4:
    	    for i in range(varshape[0]):
                for j in range(varshape[1]):
                    varvals[:] = var[i,j,:,:]
                    var[i,j,:,:] = gen.valmodoper(varvals, values)
        elif Nvars == 5:
  	    for i in range(varshape[0]):
                for j in range(varshape[1]):
                    for k in range(varshape[2]):
                        varvals[:] = var[i,j,k,:,:]
                        var[i,j,k,:,:] = gen.valmodoper(varvals, values)
        elif Nvars == 6:
	    for i in range(varshape[0]):
                for j in range(varshape[1]):
                    for k in range(varshape[2]):
                        for l in range(varshape[3]):
                            varvals[:] = var[i,j,k,l,:,:]
                            var[i,j,k,l,:,:] = gen.valmodoper(varvals, values)

    ncf.sync()
    ncf.close()

    return

def varaddref(values, ncfile, varn):
  """ Function to add a variable in an existing file copying characteristics from an existing one
  values = [variable ref]:[attr name]@[value][:[attr2]@[value2], ...]:[value/file with values] add a 
    new variable [varn] with dimension and attributes from an already existing [variable ref] with 
    attributes [[attr name]@[value][:[attr2]@[value2], ...]] in the file [netcdf] and value 
    [value/file with values]
  netcdf = netCDF file name
  varn = new variable name
  """
  fname = 'varaddref'

  if values == 'h':
      print fname + '_____________________________________________________________'
      print varaddref.__doc__
      quit()

  varvalues = values.split(':')

  Nvarvalues = len(varvalues)
  varprev = varvalues[0]
  newattrs = {}
  for iattr in range(Nvarvalues - 2):
    attrv = varvalues[iattr+1]
    newattrs[attrv.split('@')[0]] = attrv.split('@')[1]

  ncf = NetCDFFile(ncfile,'a')

  if ncf.variables.has_key(varn):
    print errormsg
    print '   varaddref: File already has the varible ' + varn + ' !!!'
    print errormsg
    ncf.close()
    quit(-1)

  if not ncf.variables.has_key(varprev):
    print errormsg
    print '    varaddref: File does not have variable ' + varprev + ' !!!!'
    print errormsg
    ncf.close()
    quit(-1)

  varp = ncf.variables[varprev]
  varpVal = varp[:]
  varpshape = varp.shape
  Nvarpshape = len(varpshape)
  varpattrs = varp.ncattrs()
  varptype = varp.dtype
  varpdims = varp.dimensions
  varpndims = varp.ndim

##  print '  shape of the variable used as reference: ',varpshape
#
# variable characteristics 
  if len(varpshape) == 4:
    dimpt = varpshape[0]
    dimpz = varpshape[1]
    dimpy = varpshape[2]
    dimpx = varpshape[3]
  elif len(varpshape) == 3:
    dimpt = varpshape[0]
    dimpy = varpshape[1]
    dimpx = varpshape[2]
  elif len(varpshape) == 3:
    dimpy = varpshape[0]
    dimpx = varpshape[1]

  newvar = ncf.createVariable(varn, varptype, dimensions=varpdims)
  newvar = ncf.variables[varn]
#
# Values
  varplen=1
  for idim in range(varpndims):
    varplen=varplen*varpshape[idim]

  if varptype == 'float' or varptype == 'float32' or varptype == 'float64' or vartype == np.float(1.) or vartype == np.float32(1.):
    newvals = np.reshape(np.arange(varplen), varpshape)*1.
  else:
    newvals = np.reshape(np.arange(varplen), varpshape)

  if not os.path.isfile(varvalues[Nvarvalues-1]):
##    print '  Using constant value'
    newvals[:] = float(varvalues[Nvarvalues-1])
  else:
##    print '  Using 2-D values from ' + varvalues[Nvarvalues-1]
    asciif = open(varvalues[Nvarvalues-1], 'r')

    fdimx = len(asciif.readlines())
    asciif.seek(0)

    if len(varpshape) == 4:
      if not fdimx == dimpx:
        print errormsg
        print '   varaddref: Provided file has dimx=', fdimx, ' and variable has dimx=', dimpx, ' !!!'
        print errormsg
        ncf.close()
        quit(-1)

      iline = 0
      idx = 0
      for fline in asciif:
        line = fline.replace('\n','')
        yvals = []
        for iyval in line.split('     '):
          yvals.append(float(iyval))

        if iline == 0:
          fdimy = len(yvals)
          if not fdimy == dimpy:
            print errormsg
            print '    varaddref: Provided file has dimy=', fdimy, ' and variable has dimy= ', dimpy, ' !!!'
            print errormsg
            ncf.close()
            quit(-1)
        for it in range(dimpt):
          for iz in range(dimpz):
            newvals[it,iz,:,idx] = yvals
  
        idx = idx+1
        iline = iline+1

    elif len(varpshape) == 3:
      if not fdimx == dimpx:
        print errormsg
        print '    varaddref: Provided file has dimx=', fdimx, ' and variable has dimx=', dimpx, ' !!!'
        print errormsg
        ncf.close()
        quit(-1)

      iline = 0
      idx = 0
      for fline in asciif:
        line = fline.replace('\n','')
        yvals = []
        for iyval in line.split('     '):
          yvals.append(float(iyval))

        if iline == 0:
          fdimy = len(yvals)
          if not fdimy == dimpy:
            print errormsg
            print '    varaddref: Provided file has dimy=', fdimy, ' and variable has dimy= ',dimpy, ' !!!'
            print errormsg
            ncf.close()
            quit(-1)
        for it in range(dimpt):
          newvals[it,:,idx] = yvals

        idx = idx+1
        iline = iline+1
    elif len(varpshape) == 2:
      if not fdimx == dimpx:
        print errormsg
        print '    varaddref: Provided file has dimx=', fdimx, ' and variable has dimx=', dimpx, ' !!!'
        print errormsg
        ncf.close()
        quit(-1)

      iline = 0
      idx = 0
      for fline in asciif:
        line = fline.replace('\n','')
        yvals = []
        for iyval in line.split('     '):
          yvals.append(float(iyval))

        if iline == 0:
          fdimy = len(yvals)
          if not fdimy == dimpy:
            print errormsg
            print '    varaddref: Provided file has dimy=', fdimy, ' and variable has dimy= ',dimpy, ' !!!'
            print errormsg
            ncf.close()
            quit(-1)

        newvals[:,idx] = yvals
        idx = idx+1
        iline = iline+1

  asciif.close()
  newvar[:] = newvals

#
# Attributes
  for iattr in range(len(varpattrs)):
    attrn = varpattrs[iattr]
    attrval = varp.getncattr(attrn)

    if attrn in newattrs:
      newattr = newvar.setncattr(attrn, newattrs[attrn])
    else:
      newattr = newvar.setncattr(attrn, attrval)

  ncf.sync()
  ncf.close()

  return

def varoutold(values, ncfile, varn):
  """ Function when we want to output variable values
  values = [optsIrange]:[optsErange]
    [optsIrange]: val1,val2,...,valN inital value for the 'N' dimensions of the variable
    [optsErange]: val1,val2,...,valN ending value for the 'N' dimensions of the variable
  ncfile = netCDF file name
  varn = variable name
  """
  import numpy as np
  from netCDF4 import Dataset as NetCDFFile

  optsIrange = values.split(':')[0]
  optsErange = values.split(':')[1]

  inirange=optsIrange.split(',')
  endrange=optsErange.split(',')

  irange = [int(val) for val in inirange]
  erange = [int(val) for val in endrange]

  if not len(irange) == len(erange):
    print errormsg
    print '    varout: Different number of values in each range!'
    print '    varout: initial range: ' + optsIrange
    print '    varout: ending range: ' + optsErange
    print errormsg
    quit(-1)
  else:
    ndims=len(irange)
 
  if not os.path.isfile(ncfile):
    print errormsg
    print '    varout: File "' + ncfile + '" does not exist !!'
    print errormsg
    quit(-1)    

  ncf = NetCDFFile(ncfile,'r')

  if ncf.dimensions.has_key('plev'):
    # removing pressure level from variable name
    varn = re.sub("\d+", "", varn) 

  if not ncf.variables.has_key(varn):
    print errormsg
    print '    varout: File "' + ncfile + '" does not have variable "' + varn + '" !!!!'
    print errormsg
    ncf.close()
    quit(-1)

  var = ncf.variables[varn]

  varshape = var.shape
  Nvarshape = len(varshape)
 
  if not Nvarshape == ndims:
    print errormsg
    print '    varout: Provided number of values of the range ' + ndims + ' is different of the shape of the variable ' + Nvarshape + ' !!!'
    print errormsg
    ncf.close()
    quit(-1)

  if Nvarshape == 1:
    varValrange = var[irange[0]:rangedim(erange[0], varshape[0])]
  elif Nvarshape == 2:
    varValrange = var[irange[0]:rangedim(erange[0], varshape[0]),                               \
      irange[1]:rangedim(erange[1]), varshape[1]]
  elif Nvarshape == 3:
    varValrange = var[irange[0]:rangedim(erange[0], varshape[0]),                               \
      irange[1]:rangedim(erange[1], varshape[1]), irange[2]:rangedim(erange[2], varshape[2])]
  elif Nvarshape == 4:
    varValrange = var[irange[0]:rangedim(erange[0], varshape[0]),                               \
      irange[1]:rangedim(erange[1], varshape[1]), irange[2]:rangedim(erange[2], varshape[2]),      \
      irange[3]:rangedim(erange[3], varshape[3])]
  elif Nvarshape == 5:
    varValrange = var[irange[0]:rangedim(erange[0], varshape[0]),                               \
      irange[1]:rangedim(erange[1], varshape[1]), irange[2]:rangedim(erange[2], varshape[2]),      \
      irange[3]:rangedim(erange[3], varshape[3]), irange[4]:rangedim(erange[4], varshape[4])]
  elif Nvarshape == 6:
    varValrange = var[irange[0]:rangedim(erange[0], varshape[0]),                               \
      irange[1]:rangedim(erange[1], varshape[1]), irange[2]:rangedim(erange[2], varshape[2]),      \
      irange[3]:rangedim(erange[3], varshape[3]), irange[4]:rangedim(erange[4], varshape[4]),      \
      irange[5]:rangedim(erange[5], varshape[5])]

  ncf.close()

  Nshaperange = len(varValrange.shape)
  Noneshape = 0
  for ir in range(Nshaperange):
    if varValrange.shape[ir] == 1:
      Noneshape = Noneshape + 1

  if Noneshape == Nshaperange - 1:
    for i in range(len(varValrange)):
      print '%2s %f' % ( 'NC', varValrange[i] )

  return

def varout(values, ncfile, varn):
    """ Function when we want to output variable values
    values = [dimname1]:[valdim1]|[dimname2]:[valdim2]|[...,[dimnameN]:[valdimN]]
      [valdim]: 
        * [integer]: which value of the dimension
        * -1: all along the dimension
        * -9: last value of the dimension
        * [beg]:[end] slice from [beg] to [end]
        * NOTE, no dim name all the dimension size
    ncfile = netCDF file name
    varn = variable name
    """

    fname = 'varout'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print varout.__doc__
        quit()

    ncobj = NetCDFFile(ncfile, 'r')

    if  not ncobj.variables.has_key(varn):
        print errormsg
        print '  ' + fname + ': file "' + ncfile + '" does not have variable "' +    \
          varn + '" !!'
        quit(-1)

    vobj = ncobj.variables[varn]

    newvar, newdims = slice_variable(vobj, values)

    Nnewdims = len(newdims)
    
    if Nnewdims == 0:
        print '%2s %f' % ( 'NC',newvar )
    elif Nnewdims == 1:
        for i in range(newvar.shape[0]):
            print '%2s %f' % ( 'NC',newvar[i] )
    elif Nnewdims == 2:
        for i0 in range(newvar.shape[0]):
            row = numVector_String(newvar[i0,:],' ')
            print 'NC ' + row
    else:
        for i0 in range(newvar.shape[Nnewdims-2]):
            varslice = []
            dimsinf = ''
            for idim in range(Nnewdims - 2):
                for d in range(newvar.shape[idim]):
                    if idim == 0: 
                        dimsinf = newdims[idim] + ': ' + str(d)
                    else:
                        dimsinf = dimsinf + ' ' + newdims[idim] + ': ' + str(d)

                    varslice.append(d)

            varslice.append(i0)
            varslice.append(0,newvar.shape[Nnewdims-1])

            row = numVector_String(newvar[tuple(varslice)],' ')
            print 'NCinf ' + dimsinf + '_________________'
            print 'NC ' + row

    ncobj.close()

    return

def chdimname(values, ncfile):
  """ Changing the name of the dimension
  values = [olddimname]:[newdimname]
    [olddimname]: old name of the dimension
    [newdimname]: new name of the dimension
  ncfile = netCDF file name
  """
  fname = 'chdimname'

  if values == 'h':
        print fname + '_____________________________________________________________'
        print chdimname.__doc__
        quit()

  if not os.path.isfile(ncfile):
    print errormsg
    print '  ' + fname + ": File '" + ncfile + "' does not exist !!"
    quit(-1)    

  ncf = NetCDFFile(ncfile,'a')

  olddimname=values.split(':')[0]
  newdimname=values.split(':')[1]

  if not ncf.dimensions.has_key(olddimname):
    print warnmsg
    print '  ' + fname + ": File '" + ncfile + "' does not have dimension '" +       \
      olddimname + "' !!"
    ncf.close()
    quit(-1)

  if not olddimname == newdimname and not ncf.dimensions.has_key(newdimname):
      newname = ncf.renameDimension(olddimname, newdimname)
      ncf.sync()
      ncf.close()
  else:
      print warnmsg
      print '  ' + fname + ": File '" + ncfile + "' already has dimension name '" +  \
        newdimname + '" '
      print '  ' + fname + ": modifying all variables which use the old '" +         \
        olddimname + "' dimension..."
      filevars = ncf.variables
      for fvarn in filevars:
          if ncf.variables.has_key(fvarn):
              fvar = ncf.variables[fvarn]
              fvardims = fvar.dimensions
              if gen.searchInlist(fvardims, olddimname):
#                  print '    variable "' + fvarn + '" uses dimension "' + olddimname + '" '
                  varinf = variable_inf(fvar)

                  newdims = tuple(fvardims)
                  change = {olddimname: newdimname}
# From http://stackoverflow.com/questions/9067043/python-replace-list-values-using-a-tuple
                  newdims = tuple([ change.get(x,x) for x in fvardims ])
                  newvar = ncf.createVariable(fvarn + 'tmpdname', varinf.dtype,      \
                    newdims, fill_value=varinf.FillValue)
                  varv = fvar[:]
                  newvar[:] = varv

                  for attrn in varinf.attributes:
                      newvarattr = newvar.ncattrs()
                      if not gen.searchInlist(newvarattr, attrn):
                          attrv = fvar.getncattr(attrn)
                          newar = newvar.setncattr(attrn, attrv)

                  fvar = ncf.renameVariable(fvarn, fvarn + 'rmdname')
                  ncf.sync()
                  newvar = ncf.renameVariable(fvarn + 'tmpdname', fvarn)
                  ncf.sync()
                  ncf.close()
                  varrm(ncfile, fvarn + 'rmdname')
                  ncf = NetCDFFile(ncfile,'a')

  return

def chvarname(values, ncfile, varn):
  """Changing the name of the variable
  values = new variable name
  ncfile = netCDF file
  varn = name of the variable
  """
  fname = 'chvarname'

  if values == 'h':
      print fname + '_____________________________________________________________'
      print chvarname.__doc__
      quit()

  if not os.path.isfile(ncfile):
    print errormsg
    print '    ' + fname + ': File "' + ncfile + '" does not exist !!'
    print errormsg
    quit(-1)    

  ncf = NetCDFFile(ncfile,'a')

  if ncf.dimensions.has_key('plev'):
    # removing pressure level from variable name
    varn = re.sub("\d+", "", varn) 

  if not ncf.variables.has_key(varn):
    print warnmsg
    print '    ' + fname + ': File does not have variable "' + varn + '" !!!!'
    ncf.close()
    quit(-1)

  if not varn == values and not ncf.variables.has_key(values):
    newname = ncf.renameVariable(varn, values)

  ncf.sync()
  ncf.close()

  return

def set_attribute(ncv, attrname, attrvalue):
    """ Sets a value of an attribute of a netCDF variable. Removes previous attribute value if exists
    ncv = object netcdf variable
    attrname = name of the attribute
    attrvalue = value of the attribute
    """

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

    attr = ncv.setncattr(attrname, attrvalue)

    return attr

def set_attributek(ncv, attrname, attrval, attrkind):
    """ Sets a value of an attribute of a netCDF variable with a kind. Removes previous attribute value if exists
    ncvar = object netcdf variable
    attrname = name of the attribute
    attrvalue = value of the attribute
    atrtrkind = kind of attribute: 'S', string ('!' as spaces); 'U', unicode ('!' as spaces); 'I', integer; 
      'Inp32', numpy integer 32; 'R', real; ' npfloat', np.float; 'D', np.float64
    """
    fname = 'set_attributek'
    validk = {'S': 'string', 'U': 'unicode', 'I': 'integer',                         \
      'Inp32': 'integer long (np.int32)', 'R': 'float', 'npfloat': 'np.float',       \
      'D': 'float long (np.float64)'}

    if type(attrkind) == type('s'):
        if attrkind == 'S':
            attrvalue = str(attrval.replace('!', ' '))
        elif attrkind == 'U':
            attrvalue = unicode(attrval.replace('!',' '))
        elif attrkind == 'I':
            attrvalue = np.int(attrval)
        elif attrkind == 'R':
            attrvalue = float(attrval)
        elif attrkind == 'npfloat':
            attrvalue = np.float(attrval)
        elif attrkind == 'D':
            attrvalue = np.float64(attrval)
        else:
            print errormsg
            print '  ' + fname + ": '" + attrkind + "' kind of attribute is not ready!"
            print '  valid values: _______'
            for key in validk.keys():
                print '    ', key,':', validk[key]
            quit(-1)
    else:
        if attrkind == type(str('a')):
            attrvalue = str(attrval.replace('!', ' '))
        elif attrkind == type(unicode('a')):
            attrvalue = unicode(attrval.replace('!',' '))
        elif attrkind == type(np.int(1)):
            attrvalue = np.int(attrval)
        elif attrkind == np.dtype('i'):
            attrvalue = np.int32(attrval)
        elif attrkind == type(float(1.)):
            attrvalue = float(attrval)
        elif attrkind == type(np.float(1.)):
            attrvalue = np.float(attrval)
        elif attrkind == np.dtype('float32'):
            attrvalue = np.array(attrval, dtype='f')
        elif attrkind == type(np.float32(1.)):
            attrvalue = np.float32(attrval)
        elif attrkind == type(np.float64(1.)):
            attrvalue = np.float64(attrval)
        else:
            print errormsg
            print '  ' + fname + ": '" + attrkind + "' kind of attribute is not ready!"
            print '  valid values: _______'
            for key in validk.keys():
                print '    ', key,':', validk[key]
            quit(-1)

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

    attr = ncv.setncattr(attrname, attrvalue)
        
    return attr

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 gaddattr(values, ncfile):
  """ Add a global attribute to a netCDF. Removes previous attribute if it exist
  values = [attrname]|[attrvalue ('!' as spaces)]
  ncfile = netCDF file
  """
  if not os.path.isfile(ncfile):
    print errormsg
    print '    gaddattr: File "' + ncfile + '" does not exist !!'
    print errormsg
    quit(-1)    

  ncf = NetCDFFile(ncfile,'a')

  attrvals=values.split('|')
  attrn=attrvals[0]
  attrv=attrvals[1].replace('!', ' ')

  ncf = set_attribute(ncf, attrn, attrv)

  ncf.sync()
  ncf.close()

  return

def gaddattrk(values, ncfile):
  """ Add a global attribute to a netCDF caring about the type. Removes previous attribute if it exist
  values = [attrname]|[attrvalue]|[attrk]
    attrname = name of the attribute
    attrvalue = value of the attribute
    attrk = 'S', string ('!' as spaces); 'I', integer;  'Inp32', numpy integer 32; 'R', real; 'D', double
  ncfile = netCDF file
  """
  if not os.path.isfile(ncfile):
    print errormsg
    print '    gaddattrk: File "' + ncfile + '" does not exist !!'
    print errormsg
    quit(-1)    

  ncf = NetCDFFile(ncfile,'a')

  attrvals=values.split('|')
  attrn=attrvals[0]
  attrv0=attrvals[1]
  attrk=attrvals[2]

  if attrk == 'S':
    attrv = str(attrv0.replace('!', ' '))
  elif attrk == 'I':
    attrv = int(attrv0)
  elif attrk == 'Inp32':
    attrv = np.int32(attrv0)
  elif attrk == 'R':
    attrv = float(attrv0)
  elif attrk == 'D':
    attrv = np.float64(attrv0)
  else:
    print errormsg
    print '    gaddattrk: "' + attrk + '" kind of attribute is not ready!'
    ncf.close()
    quit(-1)

  ncf = set_attribute(ncf, attrn, attrv)

  ncf.sync()
  ncf.close()

  return

def varaddattr(values, ncfile, varn):
  """ Add an attribute to a variable. Removes previous attribute if it exists
  values = [attrname]|[attrvalue('!' as spaces)]
  ncfile = netCDF file name
  varn = name of the variable
  """
  fname = 'varaddattr'

  if values == 'h':
      print fname + '_____________________________________________________________'
      print varaddattr.__doc__
      quit()

  if not os.path.isfile(ncfile):
    print errormsg
    print '    ' + fname +": File '" + ncfile + "' does not exist !!"
    print errormsg
    quit(-1)    

  ncf = NetCDFFile(ncfile,'a')

  if ncf.dimensions.has_key('plev'):
    # removing pressure level from variable name
    varn = re.sub("\d+", "", varn) 

  if not ncf.variables.has_key(varn):
    print errormsg
    print '    ' + fname +': File "' + ncfile + '" does not have variable "' + varn + '" !!!!'
    print errormsg
    ncf.close()
    quit(-1)

  attrvals=values.split('|')
  attrn=attrvals[0]
  attrv=attrvals[1].replace('!', ' ')

  var = ncf.variables[varn]
  var = set_attribute(var, attrn, attrv)

  ncf.sync()
  ncf.close()

  return

def varaddattrk(values, ncfile, varn):
  """ Add an attribute to a variable caring about the type
  values = [attrname]|[attrvalue]|[attrk]
    attrname = name of the attribute
    attrvalue = value of the attribute
    attrk = 'S', string ('!' as spaces); 'I', integer; 'R', real; 'D', double; 
      'npR', numpy Real, 'npR32', numpy Real-32
  ncfile = netCDF file
  varn = variable name
  """
  fname = 'varaddattrk'

  if values == 'h':
      print fname + '_____________________________________________________________'
      print varaddattrk.__doc__
      quit()

  if not os.path.isfile(ncfile):
    print errormsg
    print '    ' + fname + ': File "' + ncfile + '" does not exist !!'
    print errormsg
    quit(-1)    

  ncf = NetCDFFile(ncfile,'a')

  if ncf.dimensions.has_key('plev'):
    # removing pressure level from variable name
    varn = re.sub("\d+", "", varn) 

  if not ncf.variables.has_key(varn):
    print errormsg
    print '    ' + fname + ': File "' + ncfile + '"does not have variable ' + varn + ' !!!!'
    print errormsg
    ncf.close()
    quit(-1)

  attrvals=values.split('|')
  attrn=attrvals[0]
  attrv0=attrvals[1]
  attrk=attrvals[2]

  var = ncf.variables[varn]
  if attrk == 'S':
    attrv = str(attrv0.replace('!', ' '))
  elif attrk == 'I':
    attrv = int(attrv0)
  elif attrk == 'R':
    attrv = float8(attrv0)
  elif attrk == 'D':
    attrv = np.float64(attrv0)
  elif attrk == 'npR':
    attrv = np.float(attrv0)
  elif attrk == 'npR32':
    attrv = np.float32(attrv0)
  else:
    print errormsg
    print '    ' + fname + ': "' + attrk + '" kind of attribute is not ready!'
    ncf.close()
    quit(-1)

  var = set_attribute(var, attrn, attrv)

  ncf.sync()
  ncf.close()

  return

def varrmattr(values, ncfile, varn):
  """ Removing an attribute from a variable
  values = attribute name
  ncfile = netCDF file name
  varn = variable name
  """
  fname = 'varrmattr'
  if values == 'h':
      print fname + '_____________________________________________________________'
      print varrmattr.__doc__
      quit()

  if not os.path.isfile(ncfile):
    print errormsg
    print '    ' + fname +': File "' + ncfile + '" does not exist !!'
    quit(-1)    

  ncf = NetCDFFile(ncfile,'a')

  if ncf.dimensions.has_key('plev'):
    # removing pressure level from variable name
    varn = re.sub("\d+", "", varn) 

  if not ncf.variables.has_key(varn):
    print errormsg
    print '    ' + fname +': File "' + ncfile + '" does not have variable "' + varn + '" !!!!'
    ncf.close()
    quit(-1)

  var = ncf.variables[varn]

  attvar = var.ncattrs()
  if searchInlist(attvar, values):
      attr = var.delncattr(values)
  else:
      print warnmsg
      print '    ' + fname +': "' + varn + '" does not have attribute: ' + values

  ncf.sync()
  ncf.close()

  return

def grmattr(values, ncfile):
  """ Removing a global attribute
  values = attribute name
  ncfile = netCDF file
  """
  if not os.path.isfile(ncfile):
    print errormsg
    print '    grmattr: File "' + ncfile + '" does not exist !!'
    quit(-1)    

  ncf = NetCDFFile(ncfile,'a')

  attvar = ncf.ncattrs()
  if searchInlist(attvar, values):
      attr = ncf.delncattr(values)
  else:
      print warnmsg
      print '  grmattr: "' + ncfile + '" does not have attribute: ' + values

  ncf.sync()
  ncf.close()

  return

def fvaradd(values, ncfile):
  """ Adding variable (and all its attributes and dimensions) from a reference file to a file
  values = [netCDFref],[varnref]
    netCDFref = netCDF file name as reference for the variable to add
    varnref = name of the variable from [netCDFref] to be added
  ncfile = netCDF file name
  """

  fname = 'fvaradd'

  if values == 'h':
      print fname + '_____________________________________________________________'
      print fvaradd.__doc__
      quit()

  refnc = values.split(',')[0]
  refvar = values.split(',')[1]

  if not os.path.isfile(ncfile):
    print errormsg
    print '  ' + fname + ': File "' + ncfile + '" does not exist !!'
    quit(-1)    

  if not os.path.isfile(refnc):
    print errormsg
    print '   ' + fname + ': Reference file "' + refnc + '" does not exist !!'
    quit(-1)    

  ncf = NetCDFFile(ncfile,'a')
  ncref = NetCDFFile(refnc,'r')

  refvars = ncref.variables
  if gen.searchInlist(refvars, refvar):
      refvarv = ncref.variables[refvar]
  else:
      print errormsg
      print '   ' + fname + ': File "' + refnc + '" does not have variable: ' + refvar
      ncf.close()
      ncref.close()
      quit(-1)

  vardims = refvarv.dimensions
  vartype = refvarv.dtype
  varattr = refvarv.ncattrs()

# Checking dimensions
##
  newdims = ncf.dimensions
  for rdim in vardims:
      if not gen.searchInlist(newdims, rdim):
          print '    ' + fname + ': Adding dimension ' + rdim
          ncf.close()
          ncref.close()
          fdimadd(refnc + ',' + rdim, ncfile)
          ncf = NetCDFFile(ncfile,'a')
          ncref = NetCDFFile(refnc,'r')

# Checking fill value
## 
  if gen.searchInlist(varattr, '_FillValue'):
      varfil = refvarv._FillValue
  else:
      varfil = False

  if not ncf.variables.has_key(refvar):
      print '    ' + fname + ': Adding refvar:', refvar, 'shape: ', refvarv.shape
      var = ncf.createVariable(refvar, vartype, vardims, fill_value=varfil)
  else:
      print warnmsg
      print '    ' + fname + ': updating var:', refvar, 'shape: ', refvarv.shape
      var = ncf.variables[refvar]

  varshape = refvarv.shape
  varvals = np.zeros(tuple(varshape), dtype=vartype)      
  Nvars = len(varshape)
   
# Allocating all the necessary memory (just in case)
  var[:] = varvals

  if Nvars <= 2:
      varvals = refvarv[:]
      var[:] = varvals
  elif Nvars == 3:
      for i in range(varshape[0]):
          varvals[i,:,:] = refvarv[i,:,:]
          var[i,:,:] = varvals[i,:,:]
  elif Nvars == 4:
      for i in range(varshape[0]):
          for j in range(varshape[1]):
              varvals[i,j,:,:] = refvarv[i,j,:,:]
              var[i,j,:,:] = varvals[i,j,:,:]
  elif Nvars == 5:
      for i in range(varshape[0]):
          for j in range(varshape[1]):
              for k in range(varshape[2]):
                  varvals[i,j,k,:,:] = refvarv[i,j,k,:,:]
                  var[i,j,k,:,:] = varvals[i,j,k,:,:]
  elif Nvars == 6:
      for i in range(varshape[0]):
          for j in range(varshape[1]):
              for k in range(varshape[2]):
                  for l in range(varshape[3]):
                      varvals[i,j,k,l,:,:] = refvarv[i,j,k,l,:,:]
                      var[i,j,k,l,:,:] = varvals[i,j,k,l,:,:]

  newvar = ncf.variables[refvar]
  for attr in varattr:
      newvarattrs = newvar.ncattrs()
      attrv = refvarv.getncattr(attr)
      if not gen.searchInlist(newvarattrs, attr):     
          newvar.setncattr(attr, attrv)

  ncf.sync()
  ncf.close()
  ncref.close()

  return

def fdimadd(values, ncfile):
  """ Adding dimension from another reference file 
  values = [refnc],[refdim]
    refnc = netCDF file name as reference
    refdim = name of the dimension to be added
  ncfile = netCDF file name
  """
  fname='fdimadd'

  refnc = values.split(',')[0]
  refdim = values.split(',')[1]

  if not os.path.isfile(ncfile):
    print errormsg
    print '    ' + fname + ': File "' + ncfile + '" does not exist !!'
    quit(-1)    

  if not os.path.isfile(refnc):
    print errormsg
    print '    ' + fname + ': Reference file "' + refnc + '" does not exist !!'
    quit(-1)    

  ncf = NetCDFFile(ncfile,'a')
  ncref = NetCDFFile(refnc,'r')

  refdims = ncref.dimensions
  if gen.searchInlist(refdims, refdim):
      refdimv = ncref.dimensions[refdim]
  else:
      print errormsg
      print '    ' + fname + ': File "' + refnc + '" does not have dimension: "' + refdim + '"'
      ncf.close()
      ncref.close()
      quit(-1)

  if refdimv.isunlimited():
      print '      ' + fname + ': Unlimited dimension '
      dimsize = None
  else:
      dimsize = len(refdimv)

  print '      ' + fname + ': Adding refdim:', refdim, 'size:', dimsize
  dim = ncf.createDimension(refdim, dimsize)
  
  ncf.sync()
  ncf.close()
  ncref.close()

  return

def fattradd(var, values, ncfile):
  """ Adding attributes from a reference file
  var = variable to which has to be added the attribute
  values = [refnc]:[refvar]
    refnc = netCDF file name as reference
    refvar = variable from the reference file
  ncfile = netCDF file name
  """

  refnc = values.split(':')[0]
  refvar = values.split(':')[1]

  if not os.path.isfile(ncfile):
    print errormsg
    print '    fattradd: File "' + ncfile + '" does not exist !!'
    quit(-1)    

  if not os.path.isfile(refnc):
    print errormsg
    print '    fattradd: Reference file "' + refnc + '" does not exist !!'
    quit(-1)    

  ncf = NetCDFFile(ncfile,'a')
  ncref = NetCDFFile(refnc,'r')

  vars = ncf.variables
  if gen.searchInlist(vars, var):
      varv = ncf.variables[var]
  else:
      print '  fattradd: File "' + ncfile + '" does not have variable: "' + var + '"'
      ncf.close()
      ncref.close()
      quit(-1)

  refvars = ncref.variables
  if gen.searchInlist(refvars, refvar):
      refvarv = ncref.variables[refvar]
  else:
      print '    fattradd: File "' + refnc + '" does not have variable: "' + refvar + '"'
      ncf.close()
      ncref.close()
      quit(-1)

  refvarattrs = refvarv.ncattrs()
  Nattrs = len(refvarattrs)
  print '      fattradd: Adding ', Nattrs,' atributes from:', refvar

  for attr in refvarattrs:
      attrv = refvarv.getncattr(attr)
      atvar = set_attribute(varv, attr, attrv)
  
  ncf.sync()
  ncf.close()
  ncref.close()

  return

def fgaddattr(values, ncfile):
  """ Adding global attributes from a reference file
  values = netCDF file name as reference
  ncfile = netCDF file name
  """

  refnc = values

  if not os.path.isfile(ncfile):
    print errormsg
    print '    fgaddattr: File "' + ncfile + '" does not exist !!'
    quit(-1)    

  if not os.path.isfile(refnc):
    print errormsg
    print '    fgaddattr: Reference file "' + refnc + '" does not exist !!'
    quit(-1)    

  ncf = NetCDFFile(ncfile,'a')
  ncref = NetCDFFile(refnc,'r')

  refgattrs = ncref.ncattrs()
  Nattrs = len(refgattrs)
  print '      fgaddattr: Adding ', Nattrs,' global atributes'

  for attr in refgattrs:
      attrv = ncref.getncattr(attr)
      atvar = set_attribute(ncf, attr, attrv)
  
  ncf.sync()
  ncf.close()
  ncref.close()

  return

def varrm(ncfile, var):
  """ Removing a variable from a file
  ncfile = netCDF object file
  var = variable name to remove
  """
  import shutil as shu
  fname = 'varrm'

  if var == 'h':
      print fname + '_____________________________________________________________'
      print varrm.__doc__
      quit()

  ncf = NetCDFFile(ncfile,'a')
  ncvars = ncf.variables
  ncf.close()

  if not gen.searchInlist(ncvars, var):
      print '  ' + fname + ": File '" + ncfile + "' does not have variable: '" +     \
        var + "' !!"
      ncf.close()
      quit(-1)

  tmpncf = NetCDFFile('tmp_py.nc' , 'w')
  gtmpattr = set_attribute(tmpncf, 'copy', 'temporal')
  tmpncf.sync()
  tmpncf.close()

  for varn in ncvars:
      if not varn == var:
           fvaradd(ncfile + ',' + varn, 'tmp_py.nc')

  fgaddattr(ncfile, 'tmp_py.nc')
  shu.copyfile('tmp_py.nc', ncfile)
  os.remove('tmp_py.nc')

  return
 
def seasmean(timename, filename, varn):
    """ Function to compute the seasonal mean of a variable
    timename= name of the variable time in the file
    filename= netCDF file name
    varn= name of the variable
    """
    fillValue=1.e20

    ncf = NetCDFFile(filename,'a')
    ofile = 'seasmean_' + varn + '.nc'

    if not ncf.variables.has_key(varn):
        print errormsg
        print '    seasmean: File  "' + filename + '" does not have variable ' + varn + ' !!!!'
        print errormsg
        ncf.close()
        quit(-1)

    varobj = ncf.variables[varn]
    varinf = variable_inf(varobj)
    timeobj = ncf.variables[timename]
    timeinf = cls_time_information(ncf, timename)

    timevals=timeobj[:]
    netcdftimes = netCDFdatetime_realdatetime(timeinf.units + ' since ' +            \
      timeinf.Urefdate, timeinf.calendar, timevals)
    
    timeseasons=times_4seasons(netcdftimes, True)

    timeseasvals=seasonal_means(netcdftimes, timevals)
    
    ncfnew = NetCDFFile(ofile,'w')
    ncfnew.createDimension('seastime', timeinf.dimt/4)
    ncfnew.createDimension('seas', 4)

    newvarobj = ncfnew.createVariable('seastime', 'f4', ('seastime', 'seas',),       \
      fill_value=fillValue)
    newvarobj[:]=timeseasvals
    attr = newvarobj.setncattr('calendar', timeinf.calendar)
    attr = newvarobj.setncattr('units', timeinf.units)

    newvarobj = ncfnew.createVariable('seasn', str, ('seas'))
    attr = newvarobj.setncattr('standard_name', 'seasn')
    attr = newvarobj.setncattr('long_name', 'name of the season')
    attr = newvarobj.setncattr('units', '3-months')
    newvarobj[0]='DJF'
    newvarobj[1]='MAM'
    newvarobj[2]='JJA'
    newvarobj[3]='SON'

    newdims=[]
    idim = 0

    for ndim in varinf.dimns:
        if ndim == timename:
            newdims.append(unicode('seastime'))
            if not idim == 0:
                print errormsg
                print '  ' + fname + ': File  "' + filename + '" does not have ' +   \
                  'time dimension "' + timename + '" as the first one. It has it as #'\
                  , idim, ' !!!!'
                ncf.close()
                quit(-1)
        else:
            newdims.append(ndim)

        if not ncfnew.dimensions.has_key(ndim):
            ncfnew.sync()
            ncfnew.close()
            ncf.close()            

            fdimadd(filename + ',' + ndim, ofile)
            ncf = NetCDFFile(filename,'r')
            ncfnew = NetCDFFile(ofile,'a')

    print ncfnew.dimensions
    namedims=tuple(newdims)
    print namedims

    varobj = ncf.variables[varn]
    varinf = variable_inf(varobj)

    newvarobj=ncfnew.createVariable(varn + '_seasmean', 'f4', namedims,              \
      fill_value=fillValue)
    attr = newvarobj.setncattr('standard_name', varn + '_seasmean')
    attr = newvarobj.setncattr('long_name', 'seasonal mean of ' + varn)
    attr = newvarobj.setncattr('units', varinf.units)

    newvar = np.ones(varinf.dims[0], dtype=varinf.dtype)
    if varinf.Ndims == 1:
        newvar = newvarobj[:]
        newvarobj[:] = seasonal_means(netcdftimes, newvar)
    if varinf.Ndims == 2:
        for i in range(varinf.dims[1]):
            newvar = newvarobj[:,i]
            newvarobj[:,i] = seasonal_means(netcdftimes, newvar)
    if varinf.Ndims == 3:
        for i in range(varinf.dims[1]):
            for j in range(varinf.dims[2]):
                newvar = newvarobj[:,i,j]
                newvarobj[:,i,j] = seasonal_means(netcdftimes, newvar)
    if varinf.Ndims == 4:
        for i in range(varinf.dims[1]):
            for j in range(varinf.dims[2]):
                for k in range(varinf.dims[3]):
                    newvar = newvarobj[:,i,j,k]
                    newvarobj[:,i,j,k] = seasonal_means(netcdftimes, newvar)
    if varinf.Ndims == 5:
        for i in range(varinf.dims[1]):
            for j in range(varinf.dims[2]):
                for k in range(varinf.dims[3]):
                    for l in range(varinf.dims[4]):
                        newvar = newvarobj[:,i,j,k,l]
                        newvarobj[:,i,j,k,l] = seasonal_means(netcdftimes, newvar)
    if varinf.Ndims == 6:
        for i in range(varinf.dims[1]):
            for j in range(varinf.dims[2]):
                for k in range(varinf.dims[3]):
                    for l in range(varinf.dims[4]):
                        for m in range(varinf.dims[5]):
                            newvar = newvarobj[:,i,j,k,l,m]
                            newvarobj[:,i,j,k,l,m] = seasonal_means(netcdftimes, newvar)
    else:
        print errormsg
        print '  seasmean: number of dimensions ', varinf.Ndims, ' not ready !!!!'
        print errormsg
        ncf.close()
        quit(-1)

    ncfnew.sync()
    ncfnew.close()

    print 'seasmean: Seasonal mean file "' + ofile + '" written!'

    return

def ivars(ncfile):
  """Give all the variable names of a file
    ncfile= netCDFfile name from which all variables will be given
  """
  fname = 'ivars'

  if not os.path.isfile(ncfile):
    print errormsg
    print '    ' + fname + ': File "' + ncfile + '" does not exist !!'
    quit(-1)    

  ncf = NetCDFFile(ncfile,'r')
  ncvars = ncf.variables
  allvars=''
  ivar = 0
  for var in ncvars:
      print var
      if ivar == 0:
          allvars = var
      else:
          allvars = allvars + ':' + var
      ivar = ivar + 1
  print '  # allvars= ' + allvars
  ncf.close()

  return

def idims(ncfile):
  """Give all the dimensions names of a file
    ncfile= netCDFfile name from which all variables will be given
  """
  fname = 'idims'

  if ncfile == 'h':
      print fname + '_____________________________________________________________'
      print idims.__doc__
      quit()

  if not os.path.isfile(ncfile):
    print errormsg
    print '    ' + fname + ': File "' + ncfile + '" does not exist !!'
    quit(-1)    

  ncf = NetCDFFile(ncfile,'r')
  ncdims = ncf.dimensions
  alldims=''
  idim = 0
  for dim in ncdims:
      print dim
      if idim == 0:
          alldims=dim
      else:
          alldims = alldims + ':' + dim
      idim = idim + 1

  print '  # alldims= ' + alldims
  ncf.close()

  return

def igattrs(ncfile):
  """Give all the global attributes of a file
  """
  if not os.path.isfile(ncfile):
    print errormsg
    print '    igattrs: File "' + ncfile + '" does not exist !!'
    print errormsg
    quit()    

  ncf = NetCDFFile(ncfile,'r')
  ncattrs = ncf.ncattrs()
  allattrs=''
  allattrsdic = {}
  for attr in ncattrs:
      attrv=ncf.getncattr(attr)
      if type(attrv) == type(str('1')):
          attrk = 'S'
      elif type(attrv) == type(unicode('1')):
          attrk = 'S'
      elif type(attrv) == type(int(1)):
          attrk = 'I'
      elif type(attrv) == type(np.int(1)):
          attrk = 'Inp'
      elif type(attrv) == type(np.int32(1)):
          attrk = 'Inp32'
      elif type(attrv) == type(float(1.)):
          attrk = 'R'
      elif type(attrv) == type(np.float32(1.)):
          attrk = 'Rnp32'
      elif type(attrv) == type(np.float64(1.)):
          attrk = 'Rnp64'
      else:
          print errormsg
          print '    igattr: Reading attribute "', type(attrv), '" not ready! value:', attrv
          ncf.close()
          quit(-1)
      print attr, '|',  attrv, '|', attrk
      allattrsdic[attr] = [attrv, attrk]
      allattrs=allattrs + ':' + attr + '|' + str(attrv) + '|' + attrk

  print '####### ###### ##### #### ### ## #'
  print '# allgattrs= ' + allattrs
  ncf.close()

  return allattrsdic

def isgattrs(values, ncfile):
  """Give a single global attribute of a file and its type
  values = attribute name
  ncfile = netCDF file name
  output:
    attribute name, '|',  attribute value, '|', attribute kind ('S', string '!' as spaces; 'I', integer; 'R', real; 'D', double )
  """

  if not os.path.isfile(ncfile):
    print errormsg
    print '    isgattrs: File "' + ncfile + '" does not exist !!'
    print errormsg
    quit(-1)    

  ncf = NetCDFFile(ncfile,'r')
  ncattrs = ncf.ncattrs()

  if not searchInlist(ncattrs, values):
      print '    isgattrs: File "' + ncfile + '" does not have global attribute: "' + values + '" '
      ncf.close()
      quit(-1)

  attrv=ncf.getncattr(values)
  if type(attrv) == type(str('1')):
      attrk = 'S'
      attrv = attrv.replace(' ','!')
  elif type(attrv) == type(unicode('1')):
      attrk = 'S'
      attrv = attrv.replace(' ','!')
  elif type(attrv) == type(int(1)):
      attrk = 'I'
  elif type(attrv) == type(np.int(1)):
      attrk = 'I'
  elif type(attrv) == type(np.int32(1)):
      attrk = 'I'
  elif type(attrv) == type(float(1.)):
      attrk = 'R'
  elif type(attrv) == type(np.float32(1.)):
      attrk = 'R'
  elif type(attrv) == type(np.float64(1.)):
      attrk = 'D'
  else:
      print errormsg
      print '    isgattr: Reading attribute "', type(attrv), '" not ready! value:', attrv
      ncf.close()
      quit(-1)
  print values, '|',  attrv, '|', attrk

  ncf.close()
  return [values, attrv, attrk]

def ivattrs(ncfile, varn):
  """Give all the attributes of a variable and its type
  ncfile = netCDF file name
  var = variable name
  output:
    attribute name, '|',  attribute value, '|', attribute kind ('S', string '!' as spaces; 'I', integer; 'R', real; 'D', double )
  """
  fname = 'ivattrs'

  if varn == 'h':
      print fname + '_____________________________________________________________'
      print idims.__doc__
      quit()

  if not os.path.isfile(ncfile):
    print errormsg
    print '  ' + fname + ": File '" + ncfile + "' does not exist !!"
    quit(-1)    

  ncf = NetCDFFile(ncfile,'r')
  ncvars = ncf.variables

  if not gen.searchInlist(ncvars, varn):
      print '  ' + fname + ": File '" + ncfile + "' does not have variable: '" +     \
        varn + "' !!"
      ncf.close()
      quit(-1)
  varval = ncf.variables[varn]

  ncattrs = varval.ncattrs()
  allattrs=''
  allattrsdic = {}
  iattr = 0
  for attr in ncattrs:
      attrv=varval.getncattr(attr)
      if type(attrv) == type(str('1')):
          attrk = 'S'
          attrv = attrv.replace(' ','!')
      elif type(attrv) == type(unicode('1')):
          attrk = 'S'
          attrv = attrv.replace(' ','!')
      elif type(attrv) == type(int(1)):
          attrk = 'I'
      elif type(attrv) == type(np.int(1)):
          attrk = 'I'
      elif type(attrv) == type(np.int32(1)):
          attrk = 'I'
      elif type(attrv) == type(float(1.)):
          attrk = 'R'
      elif type(attrv) == type(np.float32(1.)):
          attrk = 'R'
      elif type(attrv) == type(np.float64(1.)):
          attrk = 'D'
      else:
          print errormsg
          print '  ' + fname + ": Attribute type '", type(attrv), "' value:", attrv, \
            "' not ready !!"
          ncf.close()
          quit(-1)
      print attr, '|',  attrv, '|', attrk
      allattrsdic[attr]  = [attrv, attrk]
      if iattr == 0:
          allattrs = attr + '|' + str(attrv) + '|' + attrk
      else:
          allattrs = allattrs + ':' + attr + '|' + str(attrv) + '|' + attrk

      iattr=iattr + 1

  print '####### ###### ##### #### ### ## #'
  print '# allvattrs= ' + allattrs
  ncf.close()

  return allattrsdic

def isvattrs(values, ncfile, varn):
  """Give a single attribute of a variable
  values = attribute name
  ncfile = netCDF file name
  varn = variable name
  """

  if not os.path.isfile(ncfile):
    print errormsg
    print '    isvattrs:File "' + ncfile + '" does not exist !!'
    print errormsg
    quit(-1)    

  ncf = NetCDFFile(ncfile,'r')
  ncvars = ncf.variables

  if not searchInlist(ncvars, varn):
      print errormsg
      print '    isvattrs:"' + ncfile + '" does not have variable: "' + varn + '" '
      ncf.close()
      quit(-1)
  varval = ncf.variables[varn]

  ncattrs = varval.ncattrs()
  if not searchInlist(ncattrs, values):
      print errormsg
      print '    isvattrs:' + ncfile + ' does not have global attribute: "' + values + '" '
      ncf.close()
      quit(-1)

  attrv=varval.getncattr(values)
  if type(attrv) == type(str('1')):
      attrk = 'S'
  elif type(attrv) == type(unicode('1')):
      attrk = 'S'
  elif type(attrv) == type(int(1)):
      attrk = 'I'
  elif type(attrv) == type(np.int(1)):
      attrk = 'I'
  elif type(attrv) == type(np.int32(1)):
      attrk = 'I'
  elif type(attrv) == type(float(1.)):
      attrk = 'R'
  elif type(attrv) == type(np.float(1.)):
      attrk = 'R'
  elif type(attrv) == type(np.float32(1.)):
      attrk = 'R'
  elif type(attrv) == type(np.float64(1.)):
      attrk = 'D'
  else:
      print errormsg
      print '    isvattr: Reading attribute "', type(attrv), '" not ready! value:', attrv
      ncf.close()
      quit(-1)
  print values, '|',  attrv, '|', attrk

  ncf.close()
  return [values, attrv, attrk]

def grattr(values, ncfile):
  """ Function to read a global atribute
  values = attribute name
  ncfile = netCDF file name
  """
  ncf = NetCDFFile(ncfile,'r')

  glob_attrs = ncf.ncattrs()

  attrPos = searchInlist(glob_attrs, values)

  if not attrPos:
    print errormsg
    print '    grattr: File "' + ncfile + '" does not have attribute "' + values + '" !!!!'
    print errormsg
    ncf.close()
    quit(-1)

  print ncf.getncattr(values)

  ncf.close()

  return

def vrattr(values, ncfile, varn):
    """ Function to remove an atribute from a variable
    values = attribute name
    ncfile = netCDF file name
    varn = variable name
    """
    fname = 'vrattr'

    ncf = NetCDFFile(ncfile,'r')

    if not ncf.variables.has_key(varn):
        print errormsg
        print '  ' + fname + ": File '" + ncfile + "' does not have variable '" +    \
          varn + "' !!!!"
        ncf.close()
        quit(-1)

    var = ncf.variables[varn]
    var_attrs = var.ncattrs()

    if not searchInlist(var_attrs, values):
        print errormsg
        print '  ' + fname + ": Variable '" + varn + "' does not have attribute '" + \
          values + "' !!!!"
        ncf.close()
        quit(-1)
    else:
        attr = var.delncattr(values)
    
    ncf.close()

    return

class cls_time_information(object):
    """ Classs to provide information about variable time
    ncfu = netCDF unit name
    tname = name of the variable time in [ncfu]
    self.calendar: calendar of the variable time
    self.unitsval: units value as it appears in attributes
    self.units: units of variable time
    self.Urefdate: reference date as it appears in the original 'units' section
    self.Srefdate: reference date as string [YYYY][MM][DD][HH][MI][SS]
    self.refdate: reference date
    self.attributes: attributes of time variable
    self.dimt: dimension of the time variable
    self.dt: distance between first two time-steps in self.tunits
    self.firstTu: first time value in self.units
    self.firstTt: first time value as datetime object
    self.firstTS: first time value as string [YYYY][MM][DD][HH][MI][SS]
    self.firstTm: first time value as matrix (from datetime; [Y], [M], [D], [H], [M], [S])
    self.lastTu: last time value in self.units
    self.firstTt: last time value as datetime object
    self.lastTS: last time value as string [YYYY][MM][DD][HH][MI][SS]
    self.lastTm: last time value as matrix (from datetime; [Y], [M], [D], [H], [M], [S])
    """
    def  __init__(self, ncfu, tname):
        import datetime as dt 
        fname = 'cls_time_information'

        if ncfu is None:
            self.unitsval = None
            self.units = None
            self.calendar = None
            self.Urefdate = None
            self.Srefdate = None
            self.refdate = None
            self.attributes = None
            self.dimt = None
            self.dt = None
            self.firstTu = None
            self.firstTt = None
            self.firstTS = None
            self.firstTm = None
            self.lastTu = None
            self.lastTt = None
            self.lastTS = None
            self.lastTm = None
        else:
            times = ncfu.variables[tname]
            attvar = times.ncattrs() 
            self.attributes = attvar
            if not searchInlist(attvar, 'units'):
                print warnmsg
                print '    ' + fname + ': time variable "' + tname +                 \
                  '" does not have attribute: "units"'
                units = None
                self.unitsval = None
                self.units = None
                self.calendar = None
                self.Urefdate = None
                self.Srefdate = None
                self.refdate = None
                if len(times.shape) == 1:
                    self.dimt = len(times[:])
                    self.dt = times[1] - times[0]
                    self.firstTu = times[0]
                    self.firstTt = None
                    self.firstTS = None
                    self.firstTm = None
                    self.lastTu = times[self.dimt]
                    self.lastTt = None
                    self.lastTS = None
                    self.lastTm = None
                elif len(times.shape) == 2:
                    if times.dimensions[1] == 'DateStrLen' and times.shape[1] == 19:
                        print warnmsg
                        print '  ' + fname + ": WRF 'Times' variable !!"
                        self.unitsval = 'seconds since 1949-12-01 00:00:00'
                        self.units = 'seconds'
                        self.calendar = 'standard'
                        self.Urefdate = '1949-12-01 00:00:00'
                        self.Srefdate = '19491201000000'
                        self.refdate = datetimeStr_datetime('1949-12-01_00:00:00')
                        self.dimt = times.shape[0]
                        self.firstTS = datetimeStr_conversion(times[0,:],            \
                          'WRFdatetime', 'YmdHMS')
                        self.firstTm = datetimeStr_conversion(times[0,:],            \
                          'WRFdatetime', 'YmdHMS')
                        self.lastTS = datetimeStr_conversion(times[self.dimt-1,:],   \
                          'WRFdatetime', 'YmdHMS') 
                        self.lastTm = datetimeStr_conversion(times[self.dimt-1,:],   \
                          'WRFdatetime', 'matYmdHMS')

                        secondTS = datetimeStr_conversion(times[1,:], 'WRFdatetime', \
                          'YmdHMS')
                        secondTt = dt.datetime.strptime(secondTS, '%Y%m%d%H%M%S')
                        self.firstTt = dt.datetime.strptime(self.firstTS,            \
                          '%Y%m%d%H%M%S')
                        self.lastTu = None
                        self.lastTt = dt.datetime.strptime(self.lastTS,              \
                          '%Y%m%d%H%M%S')

                        difft = self.firstTt - secondTt
                        self.dt = difft.days*3600.*24. + difft.seconds +             \
                          difft.microseconds/10.e6

                        difft = self.firstTt - self.refdate
                        self.firstTu = difft.days*3600.*24. + difft.seconds +        \
                          difft.microseconds/10.e6
                        difft = self.lastTt - self.refdate
                        self.lastTu = difft.days*3600.*24. + difft.seconds +         \
                          difft.microseconds/10.e6

                else:
                    self.dimt = None
                    self.dt = None
                    self.firstTu = None
                    self.firstTt = None
                    self.firstTS = None
                    self.firstTm = None
                    self.lastTu = None
                    self.lastTt = None
                    self.lastTS = None
                    self.lastTm = None
            else:
                units = times.getncattr('units')

                self.unitsval = units

                if not searchInlist(attvar, 'calendar'):
                    print warnmsg
                    print '    cls_time_information: time variable "', tname,            \
                      '" does not have attribute: "calendar"'
                    self.calendar = '-'
                else:
                    self.calendar = times.getncattr('calendar')
  
                txtunits = units.split(' ')
                self.units = txtunits[0]
                Srefdate = txtunits[len(txtunits) - 1]
# Does reference date contain a time value [YYYY]-[MM]-[DD] [HH]:[MI]:[SS]
##
                timeval = Srefdate.find(':')

                if not timeval == -1:
#        print '  refdate with time!'
                    self.refdate = datetimeStr_datetime(txtunits[len(txtunits) - 2]+\
                      '_' + Srefdate)
                    self.Urefdate = txtunits[len(txtunits) - 2] + ' ' + Srefdate
                else:
                    self.refdate = datetimeStr_datetime(Srefdate + '_00:00:00')
                    self.Urefdate = Srefdate

                self.Srefdate = self.refdate.strftime("%Y%m%d%H%M%S")
                timev = times[:]

                self.dimt = times.shape[0]
                self.dt = timev[1]-timev[0]
                self.firstTu = timev[0]
                self.firstTt = timeref_datetime(self.refdate, self.firstTu,self.units)
                self.firstTS = self.firstTt.strftime("%Y%m%d%H%M%S")
                self.firstTm = timeref_datetime_mat(self.refdate, self.firstTu,      \
                  self.units)
                self.lastTu = timev[self.dimt-1]
                self.lastTt = timeref_datetime(self.refdate, self.lastTu, self.units)
                self.lastTS = self.lastTt.strftime("%Y%m%d%H%M%S")
                self.lastTm = timeref_datetime_mat(self.refdate, self.lastTu,        \
                  self.units)

        return

def time_information(ncfu, tname):
    """ Function to provide information about variable time
    ncfu = netCDF unit name
    tname = name of the variable time in [ncfu]
    """
    times = ncfu.variables[tname]
    timeinf = []

    attvar = times.ncattrs()
    if not searchInlist(attvar, 'units'):
        print errormsg
        print '    "time" does not have attribute: "units"'
        quit(-1)
    else:
        units = times.getncattr('units')
  
    txtunits = units.split(' ')
    tunits = txtunits[0]
    Srefdate = txtunits[len(txtunits) - 1]
# Does reference date contain a time value [YYYY]-[MM]-[DD] [HH]:[MI]:[SS]
##
    timeval = Srefdate.find(':')

    if not timeval == -1:
#        print '  refdate with time!'
        refdate = datetimeStr_datetime(txtunits[len(txtunits) - 2] + '_' + Srefdate)
    else:
        refdate = dateStr_date(Srefdate)

    timeinf.append(tunits)
    timeinf.append(Srefdate)
    timeinf.append(refdate)

    return timeinf

class variable_inf(object):
    """ Class to provide the information from a given variable
    var = object netCDF variable
    self.name: name of the variable
    self.dtype: type of the variable
    self.attributes: list with the name of attributes
    self.FillValue: value of the missing value
    self.dimns: name of the dimensions of the variable
    self.dims: dimensions of the variable
    self.Ndims: number of dimensions
    self.dimx: length of dimension along x-axis
    self.dimy: length of dimension along y-axis
    self.sname: standard name
    self.lname: long name
    self.corr: attribute 'coordinates'
    self.units: units of the variable
    """

    def __init__(self, var):

        if var is None:
            self.name = None
            self.dimns = None
            self.dims = None
            self.Ndims = None
            self.dimx = None
            self.dimy = None
            self.sname = None
            self.lname = None
            self.corr = None
            self.units = None
            self.FillValue = None
            self.dtype = None
            self.attributes = None
        else:
            self.name = var._name
            self.dimns = var.dimensions
            self.dtype = var.dtype
            self.attributes = var.ncattrs()
            self.dims = var.shape

            if gen.searchInlist(self.attributes, 'standard_name'):
                self.sname = var.getncattr('standard_name')
            else:
                self.sname = None

            if gen.searchInlist(self.attributes, 'long_name'):
                self.lname = var.getncattr('long_name')
            else:
                self.lname = None

            if gen.searchInlist(self.attributes, 'coordinates'):
                self.coor = var.getncattr('coordinates')
            else:
                self.coor = None

            if gen.searchInlist(self.attributes, 'units'):
                self.units = var.getncattr('units')
            else:
                self.units = None

            if gen.searchInlist(self.attributes, '_FillValue'):
                self.FillValue = var.getncattr('_FillValue')
            else:
                self.FillValue = None
             
            self.Ndims = len(self.dims)
            if self.Ndims == 1:
                self.dimx=self.dims[0]
            if self.Ndims == 2:
                self.dimy=self.dims[0]
                self.dimx=self.dims[1]
            if self.Ndims == 3:
                self.dimy=self.dims[1]
                self.dimx=self.dims[2]
            if self.Ndims == 4:
                self.dimy=self.dims[2]
                self.dimx=self.dims[3]

        return

def subyrs(values, ncfile, varn):
  """ Function to retrieve a series of years from a file
  values = 
    [year1]:[[year2]:...[yearn]] values for years [year1], [year2], ... [yearn]
    [yearI]-[yearE] values for the period between [yearI] and [yearN]
  ncfile = netCDF file name
  varn = variable name
  """
  import datetime as dt
  import calendar as cal
  ofile = 'subsetyrs.nc'

  ncf = NetCDFFile(ncfile,'r')

  if not ncf.variables.has_key(varn):
    print errormsg
    print '   subyrs: File does not have variable "' + varn + '" !!!!'
    print errormsg
    ncf.close()
    quit(-1)

  times = ncf.variables['time']
  timevals = times[:]
  realdates = CFtimes_datetime(ncf, 'time')
  dimt = len(timevals)

# Checking years
##
  isper = values.find('-')

  desiredvalues = np.array(dimt, dtype=bool)
  desiredvaluesi = np.array(dimt, dtype=bool)
  desiredvaluese = np.array(dimt, dtype=bool)

  if not isper == -1:
# Years list given as a period [YYYYi]-[YYYYf]
    print '      subyrs: There is a period of years "' + values + '"'
    iyr = int(values.split('-')[0])
    eyr = int(values.split('-')[1])
    desiredvaluesi = np.array(realdates[:,0] >= iyr)
    desiredvaluese = np.array(realdates[:,0] <= eyr)

    desiredvalues = desiredvaluesi*desiredvaluese

  else:
    yrs = values.split(':')
    nyr = 1
    for iyr in range(len(yrs)):
      desiredvaluesi = np.array(realdates[:,0] == int(yrs[iyr]))
      if nyr == 1:
        desiredvalues = desiredvaluesi
      else:
        desiredvalues = desiredvaluesi+desiredvalues
      nyr = nyr + 1

  Ndesiredvalues = len(realdates[desiredvalues])

  print '      subyrs: N values: ', Ndesiredvalues
  if Ndesiredvalues == 0:
    print errormsg
    print '    subyrs: No values found for "' + values + '"!!'
    ncf.close()
    quit(-1)

# Variable values (assuming time as first dimension)
##
  var = ncf.variables[varn]
#  varvals = var[:]
  vardims = var.shape
  varshape = len(vardims)
  print '      subyrs: Shape of data: ',varshape, ':' , vardims

  if varshape == 1:
    vardesiredvalues = np.arange(Ndesiredvalues)
    vardesiredvalues = var[desiredvalues]
  elif varshape == 2:
    vardesiredvalues = np.arange(Ndesiredvalues*vardims[1]).reshape(Ndesiredvalues,vardims[1])
    vardesiredvalues = var[desiredvalues, :]
  elif varshape == 3:
    vardesiredvalues = np.arange(Ndesiredvalues*vardims[1]*vardims[2]).reshape(Ndesiredvalues,                        \
      vardims[1],vardims[2])
    vardesiredvalues = var[desiredvalues, :, :]
  elif varshape == 4:
    vardesiredvalues = np.arange(Ndesiredvalues*vardims[1]*vardims[2]*vardims[3]).reshape(Ndesiredvalues,             \
      vardims[1],vardims[2],vardims[3])
    vardesiredvalues = var[desiredvalues, :, :, :]
  elif varshape == 5:
    vardesiredvalues = np.arange(Ndesiredvalues*vardims[1]*vardims[2]*vardims[3]*vardims[4]).reshape(Ndesiredvalues,  \
      vardims[1],vardims[2],vardims[3],vardims[4])
    vardesiredvalues = var[desiredvalues, :, :, :, :]
  elif varshape == 6:
    vardesiredvalues = np.arange(Ndesiredvalues*vardims[1]*vardims[2]*vardims[3]*vardims[4]*                          \
      vardims[5]).reshape(Ndesiredvalues,vardims[1],vardims[2],vardims[3],vardims[4],vardims[5])
    vardesiredvalues = var[desiredvalues, :, :, :, :, :]
  else:
     print errormsg
     print '    subyrs: ', varshape, ' shape of matrix not prepared !'
     ncf.close()
     quit(-1)

#  print '  shape of desired values: ', vardesiredvalues.shape
# Creation of file
##

  ncfo = NetCDFFile( ofile, 'w')

  vardims = var.dimensions
  vartype = var.dtype
  varattr = var.ncattrs()

# Checking dimensions
##
  newdims = ncfo.dimensions
  for rdim in vardims:
      if not searchInlist(newdims, rdim):
          if not rdim == 'time':
              print '      subyrs: Adding dimension ' + rdim
              ncfo.sync()
              ncf.close()
              ncfo.close()
              fdimadd(ncfile + ',' + rdim, ofile)
              ncf = NetCDFFile(ncfile,'r')
              ncfo = NetCDFFile(ofile,'a')
          else:
              ncfo.createDimension('time', None)

# Checking fill value
## 
  if searchInlist(varattr, '_FillValue'):
      varfil = var._FillValue
  else:
      varfil = False

  newvar = ncfo.createVariable(varn, vartype, vardims, fill_value=varfil)

  if not varshape == 0:
    newvar[:] = vardesiredvalues

  newvar = ncfo.variables[varn]
  for attr in varattr:
      newvarattrs = newvar.ncattrs()
      attrv = var.getncattr(attr)
      if not searchInlist(newvarattrs, attr):     
          newvar.setncattr(attr, attrv)

  vardims = times.dimensions
  vartype = times.dtype
  varattr = times.ncattrs()

  newvar = ncfo.createVariable('time', vartype, vardims, fill_value=varfil)
  newvar = ncfo.variables['time']
  newvar[:] = timevals[desiredvalues]

  ncf.close()
  ncfo.sync()
  ncfo.close()
  fattradd('time', ncfile + ':time', ofile)
  fvaradd(ncfile + ',lon', ofile)
  fvaradd(ncfile + ',lat', ofile)

  ncfo = NetCDFFile(ofile,'a')
  newvar = ncfo.variables['time']
  newvarattrs = newvar.ncattrs()
  if searchInlist(newvarattrs, 'bounds'):
      if newvar.getncattr('bounds') == 'time_bnds':
          ncf = NetCDFFile(ncfile,'r')
          tbnds = ncf.variables['time_bnds']
          vardims = tbnds.dimensions
          vartype = tbnds.dtype
          varattr = tbnds.ncattrs()
          ncfo.createDimension('bnds', 2)
          newvar = ncfo.createVariable('time_bnds', vartype, vardims, fill_value=varfil)
          newvar[:] = tbnds[desiredvalues,:]

          ncf.close()
          ncfo.sync()
          ncfo.close()
          fattradd('time_bnds', ncfile + ':time_bnds', ofile)
      else:
          ncfo.close()
  else:
      ncfo.close()

  fgaddattr(ncfile, ofile)

  print '      subyrs: File "' + ofile + '" with a subset of ' + values + ' has been created'

  return

def submns(values, ncfile, varn):
  """ Function to retrieve a series of months from a file
  values = 
    [mon1]:[[mion2]:...[monn]] values for months [mon1], [mon2], ... [monn]
    [monI]-[monE] values for the period between [monI] and [monN]
  ncfile = netCDF file name
  varn = variable name
  """
  import datetime as dt
  import calendar as cal

  ofile = 'subsetmns.nc'

  ncf = NetCDFFile(ncfile,'r')

  if not ncf.variables.has_key(varn):
    print errormsg
    print '    submns: File "' + ncfile + '" does not have variable "' + varn + '" !!!!'
    print errormsg
    ncf.close()
    quit(-1)

  times = ncf.variables['time']
  timevals = times[:]
  realdates = CFtimes_datetime(ncf, 'time')
  dimt = len(timevals)

# Checking months
##
  isper =values.find('-')

  desiredvalues = np.array(dimt, dtype=bool)
  desiredvaluesi = np.array(dimt, dtype=bool)
  desiredvaluese = np.array(dimt, dtype=bool)

  if not isper == -1:
# Months list given as a period [MMi]-[MMf]
    print '      submns: There is a period of months "' + values + '"'
    imn = int(values.split('-')[0])
    emn = int(values.split('-')[1])
    desiredvaluesi = np.array(realdates[:,1] >= imn)
    desiredvaluese = np.array(realdates[:,1] <= emn)

    desiredvalues = desiredvaluesi*desiredvaluese

  else:
    mns = values.split(':')
    nmn = 1
    for imn in range(len(mns)):
      desiredvaluesi = np.array(realdates[:,1] == int(mns[imn]))
      if nmn == 1:
        desiredvalues = desiredvaluesi
      else:
        desiredvalues = desiredvaluesi+desiredvalues
      nmn = nmn + 1

  Ndesiredvalues = len(realdates[desiredvalues])

  print '    submns: N values: ', Ndesiredvalues
  if Ndesiredvalues == 0:
    print errormsg
    print '    submns: No values found for "' + values + '"!!'
    ncf.close()
    quit(-1)

# Variable values (assuming time as first dimension)
##
  var = ncf.variables[varn]
#  varvals = var[:]
  vardims = var.shape
  varshape = len(vardims)
#  print '      submns: Shape of data: ',varshape, ':' , vardims

  if varshape == 1:
    vardesiredvalues = np.arange(Ndesiredvalues)
    vardesiredvalues = var[desiredvalues]
  elif varshape == 2:
    vardesiredvalues = np.arange(Ndesiredvalues*vardims[1]).reshape(Ndesiredvalues,vardims[1])
    vardesiredvalues = var[desiredvalues, :]
  elif varshape == 3:
    vardesiredvalues = np.arange(Ndesiredvalues*vardims[1]*vardims[2]).reshape(Ndesiredvalues,                        \
      vardims[1],vardims[2])
    vardesiredvalues = var[desiredvalues, :, :]
  elif varshape == 4:
    vardesiredvalues = np.arange(Ndesiredvalues*vardims[1]*vardims[2]*vardims[3]).reshape(Ndesiredvalues,             \
      vardims[1],vardims[2],vardims[3])
    vardesiredvalues = var[desiredvalues, :, :, :]
  elif varshape == 5:
    vardesiredvalues = np.arange(Ndesiredvalues*vardims[1]*vardims[2]*vardims[3]*vardims[4]).reshape(Ndesiredvalues,  \
      vardims[1],vardims[2],vardims[3],vardims[4])
    vardesiredvalues = var[desiredvalues, :, :, :, :]
  elif varshape == 6:
    vardesiredvalues = np.arange(Ndesiredvalues*vardims[1]*vardims[2]*vardims[3]*vardims[4]*                          \
      vardims[5]).reshape(Ndesiredvalues,vardims[1],vardims[2],vardims[3],vardims[4],vardims[5])
    vardesiredvalues = var[desiredvalues, :, :, :, :, :]
  else:
     print errormsg
     print '    submns: ', varshape, ' shape of matrix not prepared !'
     ncf.close()
     quit(-1)

#  print '  shape of desired values: ', vardesiredvalues.shape
# Creation of file
##

  ncfo = NetCDFFile( ofile, 'w')

  vardims = var.dimensions
  vartype = var.dtype
  varattr = var.ncattrs()

# Checking dimensions
##
  newdims = ncfo.dimensions
  for rdim in vardims:
      if not searchInlist(newdims, rdim):
          if not rdim == 'time':
              print '      submns: Adding dimension ' + rdim
              ncfo.sync()
              ncf.close()
              ncfo.close()
              fdimadd(ncfile + ',' + rdim, ofile)
              ncf = NetCDFFile(ncfile,'r')
              ncfo = NetCDFFile(ofile,'a')
          else:
              ncfo.createDimension('time', None)

# Checking fill value
## 
  if searchInlist(varattr, '_FillValue'):
      varfil = var._FillValue
  else:
      varfil = False

  newvar = ncfo.createVariable(varn, vartype, vardims, fill_value=varfil)

  if not varshape == 0:
    newvar[:] = vardesiredvalues

  newvar = ncfo.variables[varn]
  for attr in varattr:
      newvarattrs = newvar.ncattrs()
      attrv = var.getncattr(attr)
      if not searchInlist(newvarattrs, attr):     
          newvar.setncattr(attr, attrv)

  vardims = times.dimensions
  vartype = times.dtype
  varattr = times.ncattrs()

  newvar = ncfo.createVariable('time', vartype, vardims, fill_value=varfil)
  newvar = ncfo.variables['time']
  newvar[:] = timevals[desiredvalues]

  ncf.close()
  ncfo.sync()
  ncfo.close()
  fattradd('time', ncfile + ':time', ofile)
  fvaradd(ncfile + ',lon', ofile)
  fvaradd(ncfile + ',lat', ofile)

  ncfo = NetCDFFile(ofile,'a')
  newvar = ncfo.variables['time']
  newvarattrs = newvar.ncattrs()
  if searchInlist(newvarattrs, 'bounds'):
      if newvar.getncattr('bounds') == 'time_bnds':
          ncf = NetCDFFile(ncfile,'r')
          tbnds = ncf.variables['time_bnds']
          vardims = tbnds.dimensions
          vartype = tbnds.dtype
          varattr = tbnds.ncattrs()
          ncfo.createDimension('bnds', 2)
          newvar = ncfo.createVariable('time_bnds', vartype, vardims, fill_value=varfil)
          newvar[:] = tbnds[desiredvalues,:]

          ncf.close()
          ncfo.sync()
          ncfo.close()
          fattradd('time_bnds', ncfile + ':time_bnds', ofile)
      else:
          ncfo.close()
  else:
      ncfo.close()

  fgaddattr(ncfile, ofile)

  print '      submns: File "' + ofile + '" with a subset of ' + values + ' has been created'

  return

def spacemean(ncfile, varn):
  """ Function to retrieve a space mean series from a multidimensional variable of a file
  ncfile = netCDF file name
  varn = variable name
  """
  import datetime as dt
  import calendar as cal

  ofile = 'spacemean_' + varn + '.nc'
  varfil=1.e20
  statsn = ['min', 'max', 'mean', 'mean2', 'stdv', 'meanwgt', 'mean2wgt', 'stdvwgt', 'quant']
  statslongn = ['minimum', 'maximum', 'mean', 'quadratic mean', 'standard deviation', 'weigthed mean',  'weigthed quadratic mean', 'weigthed standard deviation', 'quantiles']

  ncf = NetCDFFile(ncfile,'r')

  if not ncf.variables.has_key(varn):
    print errormsg
    print '    spacemean: File "' + ncfile + '" does not have variable "' + varn + '" !!!!'
    print errormsg
    ncf.close()
    quit(-1)

  times = ncf.variables['time']
  timevals = times[:]

  attvar = times.ncattrs()
  if not searchInlist(attvar, 'units'):
    print errormsg
    print '    spacemean: "time" does not have attribute: "units"'
    ncf.close()
    quit(-1)
  else:
    units = times.getncattr('units')
  
  txtunits = units.split(' ')
  tunits = txtunits[0]
  Srefdate = txtunits[len(txtunits) - 1]
# Does reference date contain a time value [YYYY]-[MM]-[DD] [HH]:[MI]:[SS]
##
  timeval = Srefdate.find(':')

  if not timeval == -1:
    print '      spacemean: refdate with time!'
    refdate = datetimeStr_datetime(txtunits[len(txtunits) - 2] + '_' + Srefdate)
  else:
    refdate = dateStr_date(Srefdate)

  dimt = len(timevals)
  realdates = np.zeros((dimt, 6), dtype=int)
  print realdates.shape

## Not in timedelta
#  if tunits == 'years':
#    for it in range(dimt):
#      realdate = refdate + dt.timedelta(years=float(times[it]))
#      realdates[it] = int(realdate.year)
#  elif tunits == 'months':
#    for it in range(dimt):
#      realdate = refdate + dt.timedelta(months=float(times[it]))
#      realdates[it] = int(realdate.year)
  if tunits == 'weeks':
    for it in range(dimt):
      realdate = refdate + dt.timedelta(weeks=float(times[it]))
      realdates[it,0] = int(realdate.year)
      realdates[it,1] = int(realdate.month)
      realdates[it,2] = int(realdate.day)
      realdates[it,3] = int(realdate.hour)
      realdates[it,4] = int(realdate.second)
      realdates[it,5] = int(realdate.minute)
  elif tunits == 'days':
    for it in range(dimt):
      realdate = refdate + dt.timedelta(days=float(times[it]))
      realdates[it,0] = int(realdate.year)
      realdates[it,1] = int(realdate.month)
      realdates[it,2] = int(realdate.day)
      realdates[it,3] = int(realdate.hour)
      realdates[it,4] = int(realdate.second)
      realdates[it,5] = int(realdate.minute)
  elif tunits == 'hours':
    for it in range(dimt):
      realdate = refdate + dt.timedelta(hours=float(times[it]))
      realdates[it,0] = int(realdate.year)
      realdates[it,1] = int(realdate.month)
      realdates[it,2] = int(realdate.day)
      realdates[it,3] = int(realdate.hour)
      realdates[it,4] = int(realdate.second)
      realdates[it,5] = int(realdate.minute)
  elif tunits == 'minutes':
    for it in range(dimt):
      realdate = refdate + dt.timedelta(minutes=float(times[it]))
      realdates[it,0] = int(realdate.year)
      realdates[it,1] = int(realdate.month)
      realdates[it,2] = int(realdate.day)
      realdates[it,3] = int(realdate.hour)
      realdates[it,4] = int(realdate.second)
      realdates[it,5] = int(realdate.minute)
  elif tunits == 'seconds':
    for it in range(dimt):
      realdate = refdate + dt.timedelta(seconds=float(times[it]))
      realdates[it,0] = int(realdate.year)
      realdates[it,1] = int(realdate.month)
      realdates[it,2] = int(realdate.day)
      realdates[it,3] = int(realdate.hour)
      realdates[it,4] = int(realdate.second)
      realdates[it,5] = int(realdate.minute)
  elif tunits == 'milliseconds':
    for it in range(dimt):
      realdate = refdate + dt.timedelta(milliseconds=float(times[it]))
      realdates[it,0] = int(realdate.year)
      realdates[it,1] = int(realdate.month)
      realdates[it,2] = int(realdate.day)
      realdates[it,3] = int(realdate.hour)
      realdates[it,4] = int(realdate.second)
      realdates[it,5] = int(realdate.minute)
  else:
    print errormsg
    print '    spacemean: time units "' + tunits + '" not ready!!!!'
    ncf.close()
    quit(-1)

# Variable values (assuming time as first dimension)
##
  var = ncf.variables[varn]
  varinf = variable_inf(var)
  if searchInlist(varinf.attributes, 'scale_factor'):
    scalefact = var.getncattr('scale_factor')
    print '      spacemean: data has a scale factor of ', scalefact
    varinf.dtype=type(np.float(1.))
  else:
    scalefact = 1.

  if searchInlist(varinf.attributes, 'add_offset'):
    offset = var.getncattr('add_offset')
    print '      spacemean: data has an offset of ', offset
  else:
    offset = 0.

#  varvals = var[:]
  vardims = var.shape
  varshape = len(vardims)
  vardimns = var.dimensions
##  print '      spacemean: Shape of data: ',varshape, ':' , vardims
  dimt=vardims[0]
  vardnames = []

# Spatial average spatial weigthed
## 
  lonvar = ncf.variables['lon']
  latvar = ncf.variables['lat']

  if not len(lonvar.shape) == 2:
    lonv = lonvar[:]
    latv = latvar[:]
    dx=lonvar.shape[0]
    dy=latvar.shape[0]
    lonval = np.zeros((dy, dx), dtype=np.float64)    
    latval = np.zeros((dy, dx), dtype=np.float64)    
    for iy in range(dy):
      lonval[iy,:] = lonv
    for ix in range(dx):
      latval[:,ix] = latv
  else:
    lonval = lonvar[:]
    latval = latvar[:]

  weightsv = abs(np.cos(latval*np.pi/180.))

  if varinf.Ndims == 1:
    print errormsg
    print '    spacemean: You can not compute a space mean for a ', varinf.Ndims, 'D var!!!'
    ncf.close()
    quit(-1)
  elif varinf.Ndims== 2:
    print errormsg
    print '    spacemean: You can not compute a space mean for a ', varinf.Ndims, 'D var!!!'
    ncf.close()
    quit(-1)
  elif varinf.Ndims == 3:
    varstats = np.ones((dimt, 8), dtype=np.float64)
    varstats = varstats*varfil
    varquant = np.ones((dimt, 21), dtype=np.float64)
    varquant = varquant*varfil
    vardnames.append(vardimns[0])
    dy=vardims[1]
    dx=vardims[2]
    for it in range(dimt):
      if not varinf.FillValue is None:
        varvl = var[it,:,:]
        varval = np.where(varvl == varinf.FillValue, None, varvl)
      else:
        varval = var[it,:,:]
      percendone(it,dimt,5,'computed space statistics')
      varst = statsVal(varval)
      varstwgt  = statsValWeigthed(varval, weightsv)
      varstats[it,0] = varst.minv
      varstats[it,1] = varst.maxv
      varstats[it,2] = varst.meanv
      varstats[it,3] = varst.mean2v
      varstats[it,4] = varst.stdv
      varquant[it,:] = varst.quantilesv
      varstats[it,5] = varstwgt.meanv
      varstats[it,6] = varstwgt.mean2v
      varstats[it,7] = varstwgt.stdv
  elif varshape == 4:
    varstats = np.ones((dimt, vardims[1], 8), dtype=np.float64)
    varstats = varstats*varfil
    varquant = np.ones((dimt, vardims[1], 21), dtype=np.float64)
    varquant = varquant*varfil
    vardimnames = (str(vardimns[0]), str(vardimns[1]))
    vardnames.append(vardimns[0])
    vardnames.append(vardimns[1])
    dy=vardims[2]
    dx=vardims[3]
    for it in range(dimt):
      for ik in range(vardims[1]):
        if not varinf.FillValue is None:
          varvl = var[it,ik,:,:]
          varval = np.where(varvl == varinf.FillValue, None, varvl)
        else:
          varval = var[it,ik,:,:]
        percendone(it*vardims[1]+ik,dimt*vardims[1],5,'computed space statistics')
        varst = statsVal(varval)
        varstwgt  = statsValWeigthed(varval, weightsv)
        varstats[it,ik,0] = varst.minv
        varstats[it,ik,1] = varst.maxv
        varstats[it,ik,2] = varst.meanv
        varstats[it,ik,3] = varst.mean2v
        varstats[it,ik,4] = varst.stdv
        varquant[it,ik,:] = varst.quantilesv
        varstats[it,ik,5] = varstwgt.meanv
        varstats[it,ik,6] = varstwgt.mean2v
        varstats[it,ik,7] = varstwgt.stdv
  elif varshape == 5:
    varstats = np.ones((dimt, vardims[1], vardims[2], 8), dtype=np.float64)
    varstats = varstats*varfil
    varquant = np.ones((dimt,  vardims[1], vardims[2], 21), dtype=np.float64)
    varquant = varquant*varfil
    vardnames.append(vardimns[0])
    vardnames.append(vardimns[1])
    vardnames.append(vardimns[2])
    dy=vardims[3]
    dx=vardims[4]
    for it in range(dimt):
      for ik in range(vardims[1]):
        for il in range(vardims[2]):
          if not varinf.FillValue is None:
            varvl = var[it,ik,il,:,:]
            varval = np.where(varvl == varinf.FillValue, None, varvl)
          else:
            varval = var[it,ik,il,:,:]

          percendone(it*vardims[1]*vardims[2]+ik*vardims[1]+il,dimt*vardims[1]*vardims[2],5,'computed space statistics')
          varst = statsVal(varval)
          varstwgt  = statsValWeigthed(varval, weightsv)
          varstats[it,ik,il,0] = varst.minv
          varstats[it,ik,il,1] = varst.maxv
          varstats[it,ik,il,2] = varst.meanv
          varstats[it,ik,il,3] = varst.mean2v
          varstats[it,ik,il,4] = varst.stdv
          varquant[it,ik,il,:] = varst.quantilesv
          varstats[it,ik,il,5] = varstwgt.meanv
          varstats[it,ik,il,6] = varstwgt.mean2v
          varstats[it,ik,il,7] = varstwgt.stdv
  else:
     print errormsg
     print '    spacemean: ', varshape, ' shape of matrix not prepared !'
     ncf.close()
     quit(-1)

  vardimnames = tuple(vardnames)
#  print '  shape of desired values: ', vardesiredvalues.shape
# Creation of file
##

  ncfo = NetCDFFile( ofile, 'w')

  vartype = var.dtype
  varattr = var.ncattrs()

# Checking dimensions
##
  newdims = ncfo.dimensions
  Nvardnames = len(vardimnames)
  for idim in range(Nvardnames):
      rdim = vardimnames[idim] 
      if not searchInlist(newdims, rdim):
          if not rdim == 'time':
              print '      spacemean: Adding dimension ' + rdim
              ncfo.sync()
              ncf.close()
              ncfo.close()
              fdimadd(ncfile + ',' + rdim, ofile)
              ncf = NetCDFFile(ncfile,'r')
              ncfo = NetCDFFile(ofile,'a')
          else:
              ncfo.createDimension('time', None)

# Checking fill value
## 
  if searchInlist(varattr, '_FillValue'):
      varfil = var._FillValue
  else:
      varfil = False

  Nstats = len(statsn)
  for ist in range(Nstats):
    if statsn[ist] == 'quant':
      print ist, statsn[ist]##, ': ', varquant[int(dimt/2),10]
      newdim = ncfo.createDimension('quant', 21)
      newvardnames = list(vardnames)
      newvardnames.append('quant')
      newvar = ncfo.createVariable(varn + statsn[ist], varinf.dtype, tuple(newvardnames), fill_value=varfil)
      newvar[:] = varquant
    else:
      print ist, statsn[ist]##, ': ', varstats[int(dimt/2),ist]
      newvar = ncfo.createVariable(varn + statsn[ist], varinf.dtype, vardimnames, fill_value=varfil)
      if varshape == 3:
        newvar[:] = varstats[:,ist]*1.
      elif varshape == 4:
        newvar[:] = varstats[:,:,ist]*1.
      elif varshape == 5:
        newvar[:] = varstats[:,:,:,ist]*1.

    newvar = ncfo.variables[varn + statsn[ist]]
    for attr in varattr:
         newvarattrs = newvar.ncattrs()
         attrv = var.getncattr(attr)
         if not searchInlist(newvarattrs, attr):
             if attr != 'scale_factor' and attr != 'add_offset' and attr != 'valid_range' \
                and attr != 'unpacked_valid_range' and attr != 'actual_range' :
#                 if not statsn[ist] == 'stdv' and not statsn[ist] == 'stdvwgt':
                     print 'attr:', attr
                     newvar.setncattr(attr, attrv)
#             else:
#                 newvar.setncattr(attr, attrv)
    
    newvar.setncattr('cell_methods', 'space ' + statslongn[ist] + ' all domain ' + str(dy) + 'x' + str(dx))

##  print '  Adding time variable'
  vartdims = times.dimensions
  vartype = times.dtype
  varattr = times.ncattrs()

  newvar = ncfo.createVariable('time', vartype, vartdims, fill_value=varfil)
  newvar = ncfo.variables['time']
  newvar[:] = times

  ncf.close()
  ncfo.sync()
  ncfo.close()
  fattradd('time', ncfile + ':time', ofile)
  fvaradd(ncfile + ',lon', ofile)
  fvaradd(ncfile + ',lat', ofile)

  ncfo = NetCDFFile(ofile,'a')
  newvar = ncfo.variables['time']
  newvarattrs = newvar.ncattrs()
  if searchInlist(newvarattrs, 'bounds'):
      if newvar.getncattr('bounds') == 'time_bnds':
          ncf = NetCDFFile(ncfile,'r')
          tbnds = ncf.variables['time_bnds']
          vardims = tbnds.dimensions
          vartype = tbnds.dtype
          varattr = tbnds.ncattrs()
          ncfo.createDimension('bnds', 2)
          newvar = ncfo.createVariable('time_bnds', vartype, vardims, fill_value=varfil)
          newvar[:] = tbnds[:]

          ncf.close()
          ncfo.sync()
          ncfo.close()
          fattradd('time_bnds', ncfile + ':time_bnds', ofile)
      else:
          ncfo.close()
  else:
      ncfo.close()

  fgaddattr(ncfile, ofile)

  print '    spacemean: File "' + ofile + '" as space mean of "' + varn + '" has been created'

  return

def timemean(values, ncfile, varn):
  """ Function to retrieve a time mean series from a multidimensional variable of a file
  values = power of the polynomial fitting with time to be applied
  ncfile = netCDF file name
  varn = variable name
  """
  import datetime as dt
  import calendar as cal

  powerv=int(values)
  ofile = 'timemean_' + varn + '.nc'
  varfil=1.e20
  statsn = ['min', 'max', 'mean', 'mean2', 'stdv', 'quant','linregress','polregress']
  statslongn = ['minimum', 'maximum', 'mean', 'quadratic mean', 'standard deviation', 'quantiles', \
    'linear regression', 'polynomial regression']

  ncf = NetCDFFile(ncfile,'r')

  if not ncf.variables.has_key(varn):
    print errormsg
    print '    timemean: File  "' + ncfile + '" does not have variable ' + varn + ' !!!!'
    print errormsg
    ncf.close()
    quit(-1)

  times = ncf.variables['time']
  timevals = times[:]

  attvar = times.ncattrs()
  if not searchInlist(attvar, 'units'):
    print errormsg
    print '    timemean: "time" does not have attribute: "units"'
    ncf.close()
    quit(-1)
  else:
    units = times.getncattr('units')
  
  txtunits = units.split(' ')
  tunits = txtunits[0]
  Srefdate = txtunits[len(txtunits) - 1]
# Does reference date contain a time value [YYYY]-[MM]-[DD] [HH]:[MI]:[SS]
##
  timeval = Srefdate.find(':')

  if not timeval == -1:
    print '      timemean: refdate with time!'
    refdate = datetimeStr_datetime(txtunits[len(txtunits) - 2] + '_' + Srefdate)
  else:
    refdate = dateStr_date(Srefdate)

  dimt = len(timevals)
  realdates = np.zeros((dimt, 6), dtype=int)
  print realdates.shape

## Not in timedelta
#  if tunits == 'years':
#    for it in range(dimt):
#      realdate = refdate + dt.timedelta(years=float(times[it]))
#      realdates[it] = int(realdate.year)
#  elif tunits == 'months':
#    for it in range(dimt):
#      realdate = refdate + dt.timedelta(months=float(times[it]))
#      realdates[it] = int(realdate.year)
  if tunits == 'weeks':
    for it in range(dimt):
      realdate = refdate + dt.timedelta(weeks=float(times[it]))
      realdates[it,0] = int(realdate.year)
      realdates[it,1] = int(realdate.month)
      realdates[it,2] = int(realdate.day)
      realdates[it,3] = int(realdate.hour)
      realdates[it,4] = int(realdate.second)
      realdates[it,5] = int(realdate.minute)
  elif tunits == 'days':
    for it in range(dimt):
      realdate = refdate + dt.timedelta(days=float(times[it]))
      realdates[it,0] = int(realdate.year)
      realdates[it,1] = int(realdate.month)
      realdates[it,2] = int(realdate.day)
      realdates[it,3] = int(realdate.hour)
      realdates[it,4] = int(realdate.second)
      realdates[it,5] = int(realdate.minute)
  elif tunits == 'hours':
    for it in range(dimt):
      realdate = refdate + dt.timedelta(hours=float(times[it]))
      realdates[it,0] = int(realdate.year)
      realdates[it,1] = int(realdate.month)
      realdates[it,2] = int(realdate.day)
      realdates[it,3] = int(realdate.hour)
      realdates[it,4] = int(realdate.second)
      realdates[it,5] = int(realdate.minute)
  elif tunits == 'minutes':
    for it in range(dimt):
      realdate = refdate + dt.timedelta(minutes=float(times[it]))
      realdates[it,0] = int(realdate.year)
      realdates[it,1] = int(realdate.month)
      realdates[it,2] = int(realdate.day)
      realdates[it,3] = int(realdate.hour)
      realdates[it,4] = int(realdate.second)
      realdates[it,5] = int(realdate.minute)
  elif tunits == 'seconds':
    for it in range(dimt):
      realdate = refdate + dt.timedelta(seconds=float(times[it]))
      realdates[it,0] = int(realdate.year)
      realdates[it,1] = int(realdate.month)
      realdates[it,2] = int(realdate.day)
      realdates[it,3] = int(realdate.hour)
      realdates[it,4] = int(realdate.second)
      realdates[it,5] = int(realdate.minute)
  elif tunits == 'milliseconds':
    for it in range(dimt):
      realdate = refdate + dt.timedelta(milliseconds=float(times[it]))
      realdates[it,0] = int(realdate.year)
      realdates[it,1] = int(realdate.month)
      realdates[it,2] = int(realdate.day)
      realdates[it,3] = int(realdate.hour)
      realdates[it,4] = int(realdate.second)
      realdates[it,5] = int(realdate.minute)
  else:
    print errormsg
    print '    timemean: time units "' + tunits + '" not ready!!!!'
    ncf.close()
    quit(-1)

  timesv = (realdates[:,0] - realdates[0,0])*12 + realdates[:,1]

# Variable values (assuming time as first dimension)
##
  var = ncf.variables[varn]
  varinf = variable_inf(var)

#  varvals = var[:]
  vardims = varinf.dims
  varshape = varinf.Ndims
  vardimns = var.dimensions

##  print '     timemean: Shape of data: ',varshape, ':' , vardims
  dimt=vardims[0]
  vardnames = []

  if varshape == 1:
    print errormsg
    print '    timemean: You can not compute a time mean for a ', varshape, 'D var!!!'
    ncf.close()    
    quit(-1)
  elif varshape == 2:
    dx=vardims[1]
    varstats = np.ones((5, dx), dtype=np.float64)
    varstats = varstats*varfil
    varquant = np.ones((21, dx), dtype=np.float64)
    varquant = varquant*varfil
    varlregress = np.ones((5, dx), dtype=np.float64)
    varlregress = varlregress*varfil
    varpregress = np.ones((powerv+1, dx), dtype=np.float64)
    varpregress = varpregress*varfil
    varpregressres = np.ones((dx), dtype=np.float64)
    varpregressres = varpregressres*varfil
    varpregresssingval = varpregress.copy()
    varpregresssingval = varpregresssingval*varfil
    vardnames.append(vardimns[1])
    for ix in range(dx):
      if not varinf.FillValue is None:
        varvl = var[:,ix]
        varval = np.where(varvl == varinf.FillValue, None, varvl)
      else:
        varval = var[:,ix]
      percendone(ix,dx,5,'computed time statistics')

      varst = statsVal(varval)
      var2st = stats2Val(timesv, varval, powerv)
      varstats[0,ix] = varst.minv
      varstats[1,ix] = varst.maxv
      varstats[2,ix] = varst.meanv
      varstats[3,ix] = varst.mean2v
      varstats[4,ix] = varst.stdv
      varquant[:,ix] = varst.quantilesv
      varlregress[:,ix] = var2st.linRegress
      varpregress[:,ix] = var2st.polRegress
      varpregressres[ix] = var2st.polRegressRes
      varpregresssingval[:,ix] = var2st.polRegressSingVal
  elif varshape == 3:
    dy=vardims[1]
    dx=vardims[2]
    varstats = np.ones((5,dy, dx), dtype=np.float64)
    varstats = varstats*varfil
    varquant = np.ones((21,dy, dx), dtype=np.float64)
    varquant = varquant*varfil
    varlregress = np.ones((5,dy, dx), dtype=np.float64)
    varlregress = varlregress*varfil
    varpregress = np.ones((powerv+1,dy, dx), dtype=np.float64)
    varpregress = varpregress*varfil
    varpregressres = np.ones((dy,dx), dtype=np.float64)
    varpregressres = varpregressres*varfil
    varpregresssingval = varpregress.copy()
    varpregresssingval = varpregresssingval*varfil
    vardnames.append(vardimns[1])
    vardnames.append(vardimns[2])
    for iy in range(dy):
      for ix in range(dx):
        
        if not varinf.FillValue is None:
          varvl = var[:,iy,ix]
          varval = np.where(varvl == varinf.FillValue, None, varvl)
        else:
          varval = var[:,iy,ix]
      
        percendone(iy*dx+ix,dy*dx,5,'computed time statistics')
        varst = statsVal(varval)
        var2st = stats2Val(timesv, varval, powerv)
        varstats[0,iy,ix] = varst.minv
        varstats[1,iy,ix] = varst.maxv
        varstats[2,iy,ix] = varst.meanv
        varstats[3,iy,ix] = varst.mean2v
        varstats[4,iy,ix] = varst.stdv
        varquant[:,iy,ix] = varst.quantilesv
        varlregress[:,iy,ix] = var2st.linRegress
        varpregress[:,iy,ix] = var2st.polRegress
        varpregressres[iy,ix] = var2st.polRegressRes
        varpregresssingval[:,iy,ix] = var2st.polRegressSingVal
  elif varshape == 4:
    dz=vardims[1]
    dy=vardims[2]
    dx=vardims[3]
    varstats = np.ones((5, dz, dy, dx), dtype=np.float64)
    varstats = varstats*varfil
    varquant = np.ones((21, dz, dy, dx), dtype=np.float64)
    varquant = varquant*varfil
    varlregress = np.ones((5, dz, dy, dx), dtype=np.float64)
    varlregress = varlregress*varfil
    varpregress = np.ones((powerv+1, dz, dy, dx), dtype=np.float64)
    varpregress = varpregress*varfil
    varpregressres = np.ones((dz,dy,dx), dtype=np.float64)
    varpregressres = varpregressres*varfil
    varpregresssingval = varpregress.copy()
    varpregresssingval = varpregresssingval*varfil
    vardnames.append(vardimns[1])
    vardnames.append(vardimns[2])
    vardnames.append(vardimns[3])
    for iz in range(dz):
      for iy in range(dy):
        for ix in range(dx):
          if not varinf.FillValue is None:
            varvl = var[:,iz,iy,ix]
            varval = np.where(varvl == varinf.FillValue, None, varvl)
          else:
            varval = var[:,iz,iy,ix]
      
          percendone(iz*dy*dx+iy*dx+ix,dz*dx*dy,5,'computed time statistics')
          varst = statsVal(varval)
          var2st = stats2Val(timesv, varval, powerv)
          varstats[0,iz,iy,ix] = varst.minv
          varstats[1,iz,iy,ix] = varst.maxv
          varstats[2,iz,iy,ix] = varst.meanv
          varstats[3,iz,iy,ix] = varst.mean2v
          varstats[4,iz,iy,ix] = varst.stdv
          varquant[:,iz,iy,ix] = varst.quantilesv
          varlregress[:,iz,iy,ix] = var2st.linRegress
          varpregress[:,iz,iy,ix] = var2st.polRegress
          varpregressres[iz,iy,ix] = var2st.polRegressRes
          varpregresssingval[:,iz,iy,ix] = var2st.polRegressSingVal

  elif varshape == 5:
    dn=vardims[1]
    dz=vardims[2]
    dy=vardims[3]
    dx=vardims[4]
    varstats = np.ones((5, dn, dz, dy, dx), dtype=np.float64)
    varstats = varstats*varfil
    varquant = np.ones((21, dn, dz, dy, dx), dtype=np.float64)
    varquant = varquant*varfil
    varlregress = np.ones((5, dn, dz, dy, dx), dtype=np.float64)
    varlregress = varlregress*varfil
    varpregress = np.ones((powerv+1, dn, dz, dy, dx), dtype=np.float64)
    varpregress = varpregress*varfil
    varpregressres = np.ones((dn,dz,dy,dx), dtype=np.float64)
    varpregressres = varpregressres*varfil
    varpregresssingval = varpregress.copy()
    varpregresssingval = varpregresssingval*varfil
    vardnames.append(vardimns[1])
    vardnames.append(vardimns[2])
    vardnames.append(vardimns[3])
    vardnames.append(vardimns[4])
    for iN in range(dn):
      for iz in range(dz):
        for iy in range(dy):
          for ix in range(dx):
            if not varinf.FillValue is None:
              varvl = var[:,iN,iz,iy,ix]
              varval = np.where(varvl == varinf.FillValue, None, varvl)
            else:
              varval = var[:,iN,iz,iy,ix]
      
            percendone(iN*dy*dx*dz+iz*dy*dx+iy*dx+ix,dn*dz*dx*dy,5,'computed time statistics')
            varst = statsVal(varval)
            var2st = stats2Val(timesv, varval, powerv)
            varstats[0,iN,iz,iy,ix] = varst.minv
            varstats[1,iN,iz,iy,ix] = varst.maxv
            varstats[2,iN,iz,iy,ix] = varst.meanv
            varstats[3,iN,iz,iy,ix] = varst.mean2v
            varstats[4,iN,iz,iy,ix] = varst.stdv
            varquant[:,iN,iz,iy,iiN,x] = varst.quantilesv
            varlregress[:,iN,iz,iy,ix] = var2st.linRegress
            varpregress[:,iN,iz,iy,ix] = var2st.polRegress
            varpregressres[iN,iz,iy,ix] = var2st.polRegressRes
            varpregresssingval[:,iN,iz,iy,ix] = var2st.polRegressSingVal

  else:
     print errormsg
     print '    timemean: ', varshape, ' shape of matrix not prepared !'
     ncf.close()
     quit(-1)

  vardimnames = tuple(vardnames)
#  print '  shape of desired values: ', vardesiredvalues.shape
# Creation of file
##

  ncfo = NetCDFFile( ofile, 'w')

  vartype = var.dtype
  varattr = var.ncattrs()

# Checking dimensions
##
  newdims = ncfo.dimensions
  Nvardnames = len(vardimnames)
  for idim in range(Nvardnames):
      rdim = vardimnames[idim] 
      if not searchInlist(newdims, rdim):
          if not rdim == 'time':
##              print '      timemean: Adding dimension ' + rdim
              ncfo.sync()
              ncf.close()
              ncfo.close()
              fdimadd(ncfile + ',' + rdim, ofile)
              ncf = NetCDFFile(ncfile,'r')
              ncfo = NetCDFFile(ofile,'a')
          else:
              print '      timemean: No time dimension!'

# Checking fill value
## 
  if searchInlist(varattr, '_FillValue'):
      varfil = var._FillValue
  else:
      varfil = False

  Nstats = len(statsn)
  for ist in range(Nstats):
    newvardnames = []
    if statsn[ist] == 'quant':
      print ist, statsn[ist]##, ': ', varquant[int(dimt/2),10]
      newdim = ncfo.createDimension('quant', 21)
      newvardnames.append('quant')
      newvardnames = newvardnames + list(vardnames)
      newvar = ncfo.createVariable(varn + statsn[ist], vartype, tuple(newvardnames), fill_value=varfil)
      newvar[:] = varquant
    elif statsn[ist] == 'linregress':
      print ist, statsn[ist]##, ': ', varquant[int(dimt/2),10]
      newdim = ncfo.createDimension('lregress', 5)
      newvar = ncfo.createVariable('lregressn', str, ('lregress',))
      newvar[0] = 'slope'
      newvar[1] = 'intercept'
      newvar[2] = 'r_value'
      newvar[3] = 'p_value'
      newvar[4] = 'std_err'
      newvardnames.append('lregress')
      newvardnames = newvardnames + list(vardnames)
      newvar = ncfo.createVariable(varn + statsn[ist], 'f4', tuple(newvardnames), fill_value=varfil)
      newvar[:] = varlregress*1.

    elif statsn[ist] == 'polregress':
      print ist, statsn[ist]##, ': ', varquant[int(dimt/2),10]
      newdim = ncfo.createDimension('pregress', powerv+1)
      newvar = ncfo.createVariable('pregressn', str, ('pregress',))
      for ip in range(powerv+1):
        newvar[ip]='coefficient**' + str(powerv-ip)
      newvardnames.append('pregress')
      newvardnames = newvardnames + list(vardnames)
      newvar = ncfo.createVariable(varn + statsn[ist], 'f4', tuple(newvardnames), fill_value=varfil)
      newvar[:] = varpregress*1.
      newvar.setncattr('power',powerv)
      newvar.setncattr('values','Polynomial coefficients, highest power first')
      newvar = ncfo.createVariable(varn + statsn[ist] + '_Residual', vartype, tuple(vardnames), fill_value=varfil)
      newvar[:] = varpregressres
      newvar.setncattr('power',powerv)
      newvar.setncattr('values','Polynomial residuals')
      newvar = ncfo.createVariable(varn + statsn[ist] + '_VandermondeSingularVector', vartype, tuple(newvardnames), fill_value=varfil)
      newvar[:] = varpregresssingval
      newvar.setncattr('power',powerv)
      newvar.setncattr('values','Polynomial coefficients, highest power first')
    else:
      print ist, statsn[ist]##, ': ', varstats[int(dimt/2),ist]
      if statsn[ist] == 'mean' or statsn[ist] == 'stdv' or statsn[ist] == 'mean2' or statsn[ist] == 'polregress_Residual' \
        or statsn[ist] == 'polregress_VandermondeSingularVector' and searchInlist(varattr, 'scale_factor'):
        newvar = ncfo.createVariable(varn + statsn[ist], 'f4', vardimnames, fill_value=varfil)
        if varshape == 2:
          newvar[:] = varstats[ist,:]*1.
        elif varshape == 3:
          newvar[:] = varstats[ist,:,:]*1.
        elif varshape == 4:
          newvar[:] = varstats[ist,:,:,:]*1.
        elif varshape == 5:
          newvar[:] = varstats[ist,:,:,:,:]*1.
      else:
        newvar = ncfo.createVariable(varn + statsn[ist], vartype, vardimnames, fill_value=varfil)
        if varshape == 2:
          newvar[:] = varstats[ist,:]
        elif varshape == 3:
          newvar[:] = varstats[ist,:,:]
        elif varshape == 4:
          newvar[:] = varstats[ist,:,:,:]
        elif varshape == 5:
          newvar[:] = varstats[ist,:,:,:,:]

    newvar = ncfo.variables[varn + statsn[ist]]
    for attr in varattr:
         newvarattrs = newvar.ncattrs()
         attrv = var.getncattr(attr)
         if not searchInlist(newvarattrs, attr):
              if attr == 'scale_factor' or attr == 'add_offset' or attr == 'valid_range' \
                or attr == 'unpacked_valid_range' or attr == 'actual_range' :
                  if not statsn[ist] == 'mean' and not statsn[ist] == 'stdv' and not statsn[ist] == 'mean2' and not \
                    statsn[ist] == 'linregress' and not statsn[ist] == 'polregress' \
                    and not statsn[ist] == 'polregress_Residual' and not \
                    statsn[ist] == 'polregress_VandermondeSingularVector':
                      newvar.setncattr(attr, attrv)
              else:
                  newvar.setncattr(attr, attrv)
    
    newvar.setncattr('cell_methods', 'time ' + statslongn[ist] + ' all period in file ' + str(dimt) + ' time steps')

  ncfo.sync()
  ncfo.close()

  fvaradd(ncfile + ',lon', ofile)
  fvaradd(ncfile + ',lat', ofile)

  fgaddattr(ncfile, ofile)

  print '    timemean: File "' + ofile + '" as time mean of "' + varn + '" has been created'

  return

def flipdim(values, filename, varn):
    """ flips the value following one dimension [Nflipdim]
    values=[Nflipdim]:[flipdim]
      [Nflipdim]: number of the dimension to flip
      [flipdim]: has also the corresondant variable dimensinon be flipped? (yes/no)
    filename= netCDF file name
    varn= variable name
    """
    fname = 'flipdim'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print flipdim.__doc__
        quit()

    arguments = '[Nflipdim]:[flipdim]'
    gen.check_arguments(fname, values, arguments, ':')

    ncf = NetCDFFile(filename,'a')

    Nflipdim=int(values.split(':')[0])
    flipdim=values.split(':')[1]

    if not ncf.variables.has_key(varn):
        print errormsg
        print '    ' + fname + ': File  "' + filename + '" does not have variable ' +\
          varn + ' !!!!'
        print errormsg
        ncf.close()
        quit(-1)

    varnc = ncf.variables[varn]
    varinf = variable_inf(varnc)

    if varinf.Ndims < Nflipdim:
        print errormsg
        print '    ' + fname + ': variable "' + varn + '" has less dimensions ',     \
          varinf.Ndims, 'than the required to flip "', Nflipdim, '!!!!'
        quit(-1)
 
    if flipdim == 'yes':
        flipdimname = varinf.dimns[Nflipdim]
        print '  ' + fname + ': Flipping also associated dimension variable "' +     \
          flipdimname + '"'

        flipdim = ncf.variables[flipdimname]

        if len(flipdim.shape) == 1:
            newdim = flipdim[:]
            flipdim[:] = newdim[::-1]
        elif len(flipdim.shape) == 2:
            if Nflipdim == varinf.Ndims:
                for i in range(flipdim.shape[0]):
                    newdim = flipdim[i,:]
                    flipdim[i,:] = newdim[::-1]
            if Nflipdim == varinf.Ndims - 1:
                for i in range(flipdim.shape[1]):
                    newdim = flipdim[:,i]
                    flipdim[:,:] = newdim[::-1]
        else:
            print errormsg
            print '    ' + fname + ': dimension to flip has ', len(flipdim.shape),   \
              ' dimensions, not ready to be flipped !!!'
            quit(-1) 

    newvar = np.ones(varinf.dims, dtype=varinf.dtype)
    if varinf.Ndims == 1:
        newvar = varnc[:]
        varnc[:] = newvar[::-1]
    elif varinf.Ndims == 2:
        if Nflipdim == 1:
            for i in range(varinf.dims[0]):
                newvar[i,:] = varnc[i,:]
                varnc[i,:] = newvar[i,::-1]
        elif Nflipdim == 0:
            for i in range(varinf.dims[1]):
                newvar[:,i] = varnc[:,i]
                varnc[:,i] = newvar[::-1,i]
    elif varinf.Ndims == 3:
        if Nflipdim == 2:
            for i in range(varinf.dims[0]):
                for j in range(varinf.dims[1]):
                    newvar[i,j,:] = varnc[i,j,:]
                    varnc[i,j,:] = newvar[i,j,::-1]
        elif Nflipdim == 1:
            for i in range(varinf.dims[0]):
                for j in range(varinf.dims[2]):
                    newvar[i,:,j] = varnc[i,:,j]
                    varnc[i,:,j] = newvar[i,::-1,j]
        elif Nflipdim == 0:
            for i in range(varinf.dims[1]):
                for j in range(varinf.dims[2]):
                    newvar[:,i,j] = varnc[:,i,j]
                    varnc[:,i,j] = newvar[::-1,i,j]
    elif varinf.Ndims == 4:
        if Nflipdim == 3:
            for i in range(varinf.dims[0]):
                for j in range(varinf.dims[1]):
                    for k in range(varinf.dims[2]):
                        newvar[i,j,k,:] = varnc[i,j,k,:]
                        varnc[i,j,k,:] = newvar[i,j,k,::-1]
        if Nflipdim == 2:
            for i in range(varinf.dims[0]):
                for j in range(varinf.dims[1]):
                    for k in range(varinf.dims[3]):
                        newvar[i,j,:,k] = varnc[i,j,:,k]
                        varnc[i,j,:,k] = newvar[i,j,::-1,k]
        if Nflipdim == 1:
            for i in range(varinf.dims[0]):
                for j in range(varinf.dims[2]):
                    for k in range(varinf.dims[3]):
                        newvar[i,:,j,k] = varnc[i,:,j,k]
                        varnc[i,:,j,k] = newvar[i,::-1,j,k]
        if Nflipdim == 0:
            for i in range(varinf.dims[1]):
                for j in range(varinf.dims[2]):
                    for k in range(varinf.dims[3]):
                        newvar[:,i,j,k] = varnc[:,i,j,k]
                        varnc[:,i,j,k] = newvar[::-1,i,j,k]
    elif varinf.Ndims == 5:
        if Nflipdim == 4:
            for i in range(varinf.dims[0]):
                for j in range(varinf.dims[1]):
                    for k in range(varinf.dims[2]):
                        for l in range(varinf.dims[3]):
                            newvar[i,j,k,l,:] = varnc[i,j,k,l,:]
                            varnc[i,j,k,l,:] = newvar[i,j,k,l,::-1]
        if Nflipdim == 3:
            for i in range(varinf.dims[0]):
                for j in range(varinf.dims[1]):
                    for k in range(varinf.dims[2]):
                        for l in range(varinf.dims[4]):
                            newvar[i,j,k,:,l] = varnc[i,j,k,:,l]
                            var[i,j,k,:,l] = newvar[i,j,k,::-1,l]
        if Nflipdim == 2:
            for i in range(varinf.dims[0]):
                for j in range(varinf.dims[1]):
                    for k in range(varinf.dims[3]):
                        for l in range(varinf.dims[4]):
                            newvar[i,j,:,k,l] = varnc[i,j,:,k,l]
                            varnc[i,j,:,k,l] = newvar[i,j,::-1,k,l]
        if Nflipdim == 1:
            for i in range(varinf.dims[0]):
                for j in range(varinf.dims[2]):
                    for k in range(varinf.dims[3]):
                        for l in range(varinf.dims[4]):
                            newvar[i,:,j,k,l] = varnc[i,:,j,k,l]
                            varnc[i,:,j,k,l] = newvar[i,::-1,j,k,l]
        if Nflipdim == 0:
            for i in range(varinf.dims[1]):
                for j in range(varinf.dims[2]):
                    for k in range(varinf.dims[3]):
                        for l in range(varinf.dims[4]):
                            newvar[:,i,j,k,l] = varnc[:,i,j,k,l]
                            varnc[:,i,j,k,l] = newvar[::-1,i,j,k,l]
    else:
        print errormsg
        print '    ' + fname + ': Number of dimensions ', varinf.Ndims,              \
          ' not ready!!!!'
        quit(-1)

    ncf.sync()
    ncf.close()

    return

def load_ncvariable_lastdims(ncf, varn, prevdims, Nlastdims):
    """ Function to load the last [Nlastdims] dimensions of a variable [varn] from a netCDF object at the other dimensions at [prevdims]
    ncf= netCDF object
    varn= variable name
    prevdims= values at the previous dimensions
    Nlastims= number of last dimensions
    """
    fname='load_ncvariable_lastdims'

    var=ncf.variables[varn]

    dims=var.shape
    Ndims=len(dims)

    Nprevdims = len(prevdims)
    if not Nprevdims + Nlastdims == Ndims:
        print erromsg
        print '  ' + fname + ': number of dimensions previous (',Nprevdim,') and last (',Nlastdims, ') does not match with variable size: ',Ndims,' !!!!'
        print errormsg
        quit(-1)

    if Nlastdims > Ndims-1:
        print errormsg
        print '  ' + fname + ': number of last dimensions ', Nlastdims,' >= than the number of dimensions of the variable ', Ndims,' !!!!'
        print errormsg
        quit(-1)

    if Ndims == 1:
        loadvar = var[:]
    elif Ndims == 2:
        loadvar = var[prevdims[0], :]
    elif Ndims == 3:
        if Nlastdims == 1:
            loadvar = var[prevdims[0], prevdims[1], :]
        else:
            loadvar = var[prevdims[0], :, :]
    elif Ndims == 4:
        if Nlastdims == 1:
            loadvar = var[prevdims[0], prevdims[1], prevdims[2], :]
        elif Nlastdims == 2:
            loadvar = var[prevdims[0], prevdims[1], :, :]
        else:
            loadvar = var[prevdims[0], :, :, :]
    elif Ndims == 5:
        if Nlastdims == 1:
            loadvar = var[prevdims[0], prevdims[1], prevdims[2], prevdims[3], :]
        elif Nlastdims == 2:
            loadvar = var[prevdims[0], prevdims[1], prevdims[2], :, :]
        elif Nlastdims == 3:
            loadvar = var[prevdims[0], prevdims[1], :, :, :]
        else:
            loadvar = var[prevdims[0], :, :, :, :]
    elif Ndims == 6:
        if Nlastdims == 1:
            loadvar = var[prevdims[0], prevdims[1], prevdims[2], prevdims[3], prevdims[4], :]
        elif Nlastdims == 2:
            loadvar = var[prevdims[0], prevdims[1], prevdims[2], prevdims[3], :, :]
        elif Nlastdims == 3:
            loadvar = var[prevdims[0], prevdims[1], prevdims[2], :, :, :]
        elif Nlastdims == 4:
            loadvar = var[prevdims[0], prevdims[1], :, :, :, :]
        else:
            loadvar = var[prevdims[0], :, :, :, :]
    else:
        print errormsg
        print '  ' + fname + ' variable size ', Ndims, ' not ready!!!'
        print errormsg
        quit(-1)

    return loadvar

def fill_ncvariable_lastdims(ncf, varn, prevdims, Nlastdims, fillvals):
    """ Function to fill the last [Nlastdims] dimensions of a variable [varn] from a netCDF object at the other dimensions at [prevdims]
      with as given set of [fillvals] values
    ncf= netCDF object
    varn= variable name
    prevdims= values at the previous dimensions
    Nlastims= number of last dimensions
    fillvals= values to use to fill
    """
    fname='fill_ncvariable_lastdims'

    var=ncf.variables[varn]

    dims=var.shape
    Ndims=len(dims)

    Nprevdims = len(prevdims)
    if not Nprevdims + Nlastdims == Ndims:
        print erromsg
        print '  ' + fname + ': number of dimensions previous (',Nprevdim,') and last (',Nlastdims, ') does not match with variable size: ',Ndims,' !!!!'
        print errormsg
        quit(-1)

    if Nlastdims > Ndims-1:
        print errormsg
        print '  ' + fname + ': number of last dimensions ', Nlastdims,' >= than the number of dimensions of the variable ', Ndims,' !!!!'
        print errormsg
        quit(-1)

    if Ndims == 1:
        var[:] = fillvals
    elif Ndims == 2:
        var[prevdims[0], :] = fillvals
    elif Ndims == 3:
        if Nlastdims == 1:
            var[prevdims[0], prevdims[1], :] = fillvals
        else:
            var[prevdims[0], :, :] = fillvals
    elif Ndims == 4:
        if Nlastdims == 1:
            var[prevdims[0], prevdims[1], prevdims[2], :] = fillvals
        elif Nlastdims == 2:
            var[prevdims[0], prevdims[1], :, :] = fillvals
        else:
            var[prevdims[0], :, :, :] = fillvals
    elif Ndims == 5:
        if Nlastdims == 1:
            var[prevdims[0], prevdims[1], prevdims[2], prevdims[3], :] = fillvals
        elif Nlastdims == 2:
            var[prevdims[0], prevdims[1], prevdims[2], :, :] = fillvals
        elif Nlastdims == 3:
            var[prevdims[0], prevdims[1], :, :, :] = fillvals
        else:
            var[prevdims[0], :, :, :, :] = fillvals
    elif Ndims == 6:
        if Nlastdims == 1:
            var[prevdims[0], prevdims[1], prevdims[2], prevdims[3], prevdims[4], :] = fillvals
        elif Nlastdims == 2:
            var[prevdims[0], prevdims[1], prevdims[2], prevdims[3], :, :] = fillvals
        elif Nlastdims == 3:
            var[prevdims[0], prevdims[1], prevdims[2], :, :, :] = fillvals
        elif Nlastdims == 4:
            var[prevdims[0], prevdims[1], :, :, :, :] = fillvals
        else:
            var[prevdims[0], :, :, :, :] = fillvals
    else:
        print errormsg
        print '  ' + fname + ' variable size ', Ndims, ' not ready!!!'
        print errormsg
        quit(-1)

    return

def maskvar(values, filename, varn):
    """ Function to mask a variable using a mask. It is assumed that mask[...,dimM,dimJ,dimK] and 
      var[...,dimM,dimJ,dimK] share the last dimensions
    values= [maskfilename]:[maskvar]:[dimsmask]:[timename]
      [maskfilename]= file with the mask
      [maskvar]= name of the variable with the mask
      [dimsmask]= dimensions d1,d2,d3,... to use from variable [mask] (ahead of the sharing ones with [var])
      [timename]= name of the variable time in [filename]
    filename= netCF file name
    varn= variable name
    """
    fname='maskvar'

    fillValue=1.e20
    ofile = 'mask_' + varn + '.nc'

    maskfilename = values.split(':')[0]
    maskvar = values.split(':')[1]
    maskdims = np.array(values.split(':')[2].split(','), dtype=int)
    timename = values.split(':')[3]

    ncf = NetCDFFile(filename,'r')

    if not ncf.variables.has_key(varn):
        print errormsg
        print '    ' + fname + ': File  "' + filename + '" does not have variable "' + varn + '" !!!!'
        print errormsg
        ncf.close()
        quit(-1)

    varobj = ncf.variables[varn]
    varinf = variable_inf(varobj)
    timeobj = ncf.variables[timename]
    timeinf = cls_time_information(ncf, timename)

    ncfmask = NetCDFFile(maskfilename,'r')

    if not ncfmask.variables.has_key(maskvar):
        print errormsg
        print '    ' + fname + ': File  "' + maskfilename + '" does not have variable mask "' + maskvar + '" !!!!'
        print errormsg
        ncf.close()
        ncfmask.close()
        quit(-1)

    varmaskobj = ncfmask.variables[maskvar]
    varmaskinf = variable_inf(varmaskobj)

    sdims=[]
    for ivdim in range(varinf.Ndims):
        vardim = varinf.Ndims - ivdim - 1
        maskdim = varmaskinf.Ndims - ivdim - 1
        if varinf.dims[vardim] == varmaskinf.dims[vardim]:
            sdims.append(varinf.dims[vardim])
        else:
            break

    samedims = sdims[::-1]
    print '  ' + fname + ': variable: ', varinf.dims, ' and mask: ', varmaskinf.dims,' share: ', samedims

# masking
##
    Nsamedims=len(samedims)

    if not Nsamedims + len(maskdims) == varmaskinf.Ndims:
        print errormsg
        print '  ' + fname + ': desired dimensions of mask ', maskdims, ' and coincident dims with variable ',Nsamedims, ' does not match mask dims ',varmaskinf.Ndims,' !!!!'
        print errormsg
        ncf.close()
        ncfmask.close()
        quit(-1)

    if varmaskinf.Ndims > Nsamedims:
        maskvals = load_ncvariable_lastdims(ncfmask, maskvar, maskdims, Nsamedims)
    else:
        maskvals = maskvarobj[:]

    ncfmask.close()

# Creation of the new file
##
    ncfnew = NetCDFFile(ofile,'w')
   
    for idim in range(varinf.Ndims):
        newdimv = ncf.dimensions[varinf.dimns[idim]]
        if newdimv.isunlimited():
            ncfnew.createDimension(varinf.dimns[idim], None)
        else:
            ncfnew.createDimension(varinf.dimns[idim], varinf.dims[idim])

    newvar = ncfnew.createVariable(varn, varinf.dtype, varinf.dimns, fill_value=fillValue)
    for attrn in varinf.attributes:
        if not attrn == '_FillValue':
            attr = newvar.setncattr(attrn, varobj.getncattr(attrn))

    attr = newvar.setncattr('mask', 'variable masked using ' + values.split(':')[2] + ' of variable ' + maskvar + ' from file ' + maskfilename)

    ncfnew.sync()
    ncfnew.close()

    for varns in ncf.variables:
        if not varns == varn:
            fvaradd(filename + ',' + varns, ofile)

    ncfnew = NetCDFFile(ofile,'a')

    Nptmask = 1
    for isdim in range(Nsamedims):
        Nptmask = Nptmask * samedims[isdim]

    Nvarloop = 1
    varsecdims = []
    for insdim in range(varinf.Ndims - Nsamedims):
        Nvarloop = Nvarloop * varinf.dims[insdim]
        varsecdims.append(0)

    Nsecdims = len(varsecdims)

    for iloop in range(Nvarloop):
        varval = load_ncvariable_lastdims(ncf, varn, varsecdims, Nsamedims)
        newvarval = np.where(maskvals == 1, varval, fillValue)
        if np.sum(newvarval == fillValue) == Nptmask:
            print errormsg
            print '  ' + fname + ': all values got masked!!!'
            print erromsg
            quit(-1)

        fill_ncvariable_lastdims(ncfnew,varn,varsecdims,Nsamedims,newvarval)

        varsecdims[Nsecdims -1] = varsecdims[Nsecdims - 1] + 1
        if varsecdims[Nsecdims - 1] > varinf.dims[Nsecdims - 1] - 1:
            varsecdims[Nsecdims - 1] = 0
            for jdim in range(Nsecdims - 1):
                varsecdims[Nsecdims - 2 - jdim] = varsecdims[Nsecdims - 2 - jdim] + 1
                if varsecdims[Nsecdims - 2 - jdim] <= varinf.dims[Nsecdims - 2 - jdim] - 1:
                    break
                else:
                    varsecdims[Nsecdims - 2 - jdim] = 0
                    
    print 'variable: ', varinf.dims, ' and mask: ', varmaskinf.dims,' share: ', samedims, Nvarloop

    ncfnew.sync()
    ncfnew.close()
    ncf.close()

    print 'masked file "' + ofile + '" generated !!!'

    return

def chgtimestep(values, origfile, varN):
    """ Function to change the values of a given time-step of a variable inside a netCDF for values from a nother file
    [values]=[origtime_step]:[newfile]:[newtime_step]
      [origtime_step]: desired original time step to change: 'first', 'last', 'middle', '[num]'
      [newfile]: new netCDF file name
      [newtime_step]: desired new time step to change: 'first', 'last', 'middle', '[num]' 'zeros', 'fillVal'
        'first': first time-step
        'last': last time-step
        'middle': middle time-step
        '[num]': [num] time-step
        'zeros': fill time-step with zeros
        'fillVal': fill time-step with fill_Values [FillValue]
    [varN]= variable name
    [origfile]= original netCDF file name
    """
    fname = 'chgtimestep'
    ermsg = fname + ': ERROR -- error -- ERROR -- error'

    vals = values.split(':')
    origtime_step = vals[0]
    newfile = vals[1]
    newtime_step = vals[2]
    if len(vals) == 4:
       FillValue = np.float(vals[3])

    filexist(origfile, ermsg, 'original')
    filexist(newfile, ermsg, 'new')

    print 'origfile: ',origfile
    ncofile = NetCDFFile(origfile,'a')
    varinfile(ncofile, origfile, ermsg, 'change', varN)

    ncnfile = NetCDFFile(newfile,'r')
    varinfile(ncofile, newfile, ermsg, 'new', varN)
    ncnfile.close()

    if newtime_step == 'zeros':
        newvals = uploading_timestep(newfile, varN, 'first')
        newvals = 0.
    elif newtime_step == 'fillVal':
        newvals = uploading_timestep(newfile, varN, 'first')
        newvals = FillValue
    else:
        newvals = uploading_timestep(newfile, varN, newtime_step)

    varobj = ncofile.variables[varN]
    Ndims = len(varobj.shape)

    dimt = varobj.shape[0]
    if origtime_step == 'first':
        oval = 0
    elif origtime_step == 'middle':
        oval = int(dimt/2)
    elif origtime_step == 'last':
        oval = dimt-1
    else:
        oval = int(origtime_step)

    if Ndims == 1:
        varobj[oval] = newvals
    elif Ndims == 2:
        varobj[oval,:] = newvals
    elif Ndims == 3:
        varobj[oval,:,:] = newvals
    elif Ndims == 4:
        varobj[oval,:,:,:] = newvals
    elif Ndims == 5:
        varobj[oval,:,:,:,:] = newvals
    elif Ndims == 6:
        varobj[oval,:,:,:,:,:] = newvals
    else:
        print ermsg
        print '  variable size', Ndims, 'not ready !'
        print ermsg
        quit(-1)

    ncofile.sync()
    ncofile.close()

    return

def uploading_timestep(ncfile, varN, time_step):
    """ Function to upload a given time-step of a variable inside a netCDF
    [ncfile]= netCDF file name
    [varN]= variable name
    [time_step]= desired time step: 'first', 'last', 'middle', '[num]'
      'first': first time-step
      'last': last time-step
      'middle': middle time-step
      '[num]': [num] time-step
    """
    fname = 'uploading_timestep'
    ermsg = fname + ': ERROR -- error -- ERROR -- error'

    filexist(ncfile, ermsg, 'uploading')
    ncufile = NetCDFFile(ncfile,'r')

    varinfile(ncufile, ncfile, ermsg, 'uploading', varN)

    varobj = ncufile.variables[varN]

    Ndims = len(varobj.shape)

    dimt = varobj.shape[0]
    if time_step == 'first':
        upval = 0
    elif time_step == 'middle':
        upval = int(dimt/2)
    elif time_step == 'last':
        upval = dimt-1
    else:
        upval = int(time_step)

    if Ndims == 1:
        uploadvar = varobj[upval]
    elif Ndims == 2:
        uploadvar = varobj[upval,:]
    elif Ndims == 3:
        uploadvar = varobj[upval,:,:]
    elif Ndims == 4:
        uploadvar = varobj[upval,:,:,:]
    elif Ndims == 5:
        uploadvar = varobj[upval,:,:,:,:]
    elif Ndims == 6:
        uploadvar = varobj[upval,:,:,:,:,:]
    else:
        print ermsg
        print '  variable size', Ndims, 'not ready !'
        print ermsg
        quit(-1)

    return uploadvar

def timeshiftvar(values, fileN, varN, FillVal=1.e20):
    """ Function to temporaly shift a number of time-steps a given variable inside a netCDF file
    [values]=[nsteps]:[[FillValue]]
      [nsteps]: desired number of time step to move
      [FillValue]: value to fill the empty time-steps
    [fileobj]= original netCDF object
    [varN]= variable name
    """
    from sys import stdout

    fname = 'timesfhitvar'
    ermsg = fname + ': ERROR -- error -- ERROR -- error'

    nsteps = int(values.split(':')[0])
    if len(values.split(':')) == 2:
        FillVal = np.float(values.split(':')[1])

    fileobj = NetCDFFile(fileN,'a')

    varobj = fileobj.variables[varN]
    vardims = varobj.shape
    vartype = varobj.dtype
    Ndims = len(vardims)

    dimt = vardims[0]
    if nsteps > 0:
        inimov = nsteps
        endmov = dimt
        iniplace = 0
        endplace = dimt - nsteps 
    else:
        inimov = 0
        endmov = dimt + nsteps 
        iniplace = -nsteps
        endplace = dimt

    print '  ' + fname + ': moving', nsteps, '___ __ _'
    print '    from (', inimov, ',', endmov, ') to (',iniplace,',',endplace,')' 

    if Ndims == 1:
        vals = np.ones(vardims, dtype=vartype)*FillVal
        vals[iniplace:endplace] = varobj[inimov:endmov]
        varobj[:] = vals
    elif Ndims == 2:
        vals = np.ones(vardims, dtype=vartype)*FillVal
        vals[iniplace:endplace,:] = varobj[inimov:endmov,:]
        varobj[:] = vals
    elif Ndims == 3:
        vals = np.ones((vardims[0], vardims[1]), dtype=vartype)*FillVal
        for i in range(vardims[2]):
            if (i%10 == 0): 
                print '\r  shifted ' + '{0:5.2g}'.format(i*100./vardims[2]) + ' %',
                stdout.flush()

            vals[iniplace:endplace,:] = varobj[inimov:endmov,:,i]
            varobj[:,:,i] = vals
    elif Ndims == 4:
        vals = np.ones((vardims[0], vardims[1]), dtype=vartype)*FillVal
        for i in range(vardims[2]):
            for j in range(vardims[3]):
                nvals=i*vardims[3] + j
                if (nvals%100 == 0): 
                    print '\r  shifted ' + '{0:5.2g}'.format(nvals*100./(vardims[2]*vardims[3])) + ' %',
                    stdout.flush()

                vals[iniplace:endplace,:] = varobj[inimov:endmov,:,i,j]
                varobj[:,:,i,j] = vals
    elif Ndims == 5:
        vals = np.ones((vardims[0], vardims[1]), dtype=vartype)*FillVal
        for i in range(vardims[2]):
            for j in range(vardims[3]):
                for k in range(vardims[4]):
                    nvals=i*vardims[3]*vardims[4] + j*vardims[4] + k
                    if (nvals%1000 == 0): 
                        print '\r  shifted ' + '{0:5.2g}'.format(nvals*100./(vardims[2]*vardims[3]*vardims[4])) + ' %',
                        stdout.flush()

                    vals[iniplace:endplace,:] = varobj[inimov:endmov,:,i,j,k]
                    varobj[:,:,i,j,k] = vals
    elif Ndims == 6:
        vals = np.ones((vardims[0], vardims[1]), dtype=vartype)*FillVal
        for i in range(vardims[2]):
            for j in range(vardims[3]):
                for k in range(vardims[4]):
                    for l in range(vardims[5]):
                        nvals=i*vardims[3]*vardims[4]*vardims[5] + j*vardims[4]*vardims[5] + k*vardims[5] + l
                        if (nvals%10000 == 0): 
                            print '\r  shifted ' + \
                             '{0:5.2g}'.format(nvals*100./(vardims[2]*vardims[3]*vardims[4]*vardims[5])) + ' %',
                            stdout.flush()

                        vals[iniplace:endplace,:] = varobj[inimov:endmov,:,i,j,k,l]
                        varobj[:,:,i,j,k,l] = vals
    else:
        print ermsg
        print '  variable size', Ndims, 'not ready !'
        print ermsg
        quit(-1)

    print stdout.write("\n")

    fileobj.sync()
    fileobj.close()

    return

def addvals(values, filename, varN):
    """ Function to add values to a given variable at a given dimension
    values = [dimension]:[position]:[Nvals]:[addval]
      [dimension]: dimension at which the variable wants to be increased
      [position]: position within the dimension at which the variable wants to be increased
        'first': first position of the dimension
        'middle': middle position of the dimension
        'last': last position of the dimension
        'num': before given value
      [Nvals]: number of values
      [addval]: value to give to the added values
        'val': a given value
        'missing': as a missing value
    filename = name of the netCDF file
    varN = name of the variable
    """
    import subprocess as sub
    fname = 'addvals'
    
    if values == 'h':
        print fname + '_____________________________________________________________'
        print addvals.__doc__
        quit()

    newf = 'addvals.nc'

    dimension=int(values.split(':')[0])
    position=values.split(':')[1]
    Nvals=int(values.split(':')[2])
    addval=values.split(':')[3]

    filexist(filename, errormsg, 'add values')
    ncfa = NetCDFFile(filename,'r')

    varinfile(ncfa, filename, errormsg, 'adding', varN)
    varobj=ncfa.variables[varN]

    varinf=variable_inf(varobj)

    newdims=list(varinf.dims)
    newdims[dimension] = newdims[dimension] + Nvals
    newdims=tuple(newdims)

    dmodname = varinf.dimns[dimension]
    print '      ' + fname + ' increassed dimension "' + dmodname + '"'

    if position == 'first':
        pos=0
    elif position == 'middle':
        pos=(varinf.dims[dimension])/2
    elif position == 'last':
        pos=varinf.dims[dimension]
    else:
        pos=int(position)
    
    if pos > varinf.dims[dimension]:
        print errormsg
        print fname + ': position given ', pos,' is too big for the size of the dimension ',varinf.dims[dimension], '!!!!'
        print errormsg
        quit(-1)

##    print 'starting position: ', pos

    if addval == 'missing':
        addvaln = 1.e20
    else:
        addvaln = addval
    addvalv=typemod(addvaln, str(varinf.dtype))

    newnc = NetCDFFile(newf,'w')

# Dimensions
## 
    for dim in ncfa.dimensions.values():
        dname = dim._name
        dsize = dim.__len__()
        if dim.isunlimited():
            dsize=None 
        else:
            if dname == varinf.dimns[dimension]:
                dsize=newdims[dimension]

        newnc.createDimension(dname, size=dsize)

# Variables
## 
    for var in ncfa.variables.values():
        vname = var._name
        vkind = var.dtype
        vdims = var.dimensions

        varattrs = var.ncattrs()
        if searchInlist(varattrs, '_FillValue'):
            fillval = var.getncattr('_FillValue')
            newvarobj = newnc.createVariable(vname, vkind, vdims, fill_value=fillval)
        elif vname == varN and addval == 'missing':
            newvarobj = newnc.createVariable(vname, vkind, vdims, fill_value=typemod(addvaln, str(varinf.dtype)))
        else:
            newvarobj = newnc.createVariable(vname, vkind, vdims)
         
        varobj=ncfa.variables[vname]
        vals = varobj[:]

        if vname == varN:
             for ival in range(Nvals):
##                 print '      ' + fname + ': adding',ival+1,' values'
                 newvar = np.insert(vals, pos, addvalv, axis=dimension)
                 vals=newvar.copy()
             newvarobj[:] = newvar
        else:
            if vname == dmodname:
# Increassing dimension variable values
##
                dvals=ncfa.variables[dmodname][:]
                if position == 'first':
                    valB = -(dvals[1] - dvals[0])
                    valA=dvals[pos] + valB
                elif position == 'last':
                    valB=-(dvals[1] - dvals[0])
                    valA=dvals[pos-1] - valB*Nvals
                else:
                    valB=-(dvals[pos] - dvals[pos-1])/(Nvals+1)
                    valA=dvals[pos-1] - valB*Nvals

                for ival in range(Nvals):
                     addvalvar=valA + valB*ival
##                     print '    ' + fname + ' adding to dimension variable "', dmodname ,'" value ',addvalvar
                     newvar = np.insert(vals, pos, addvalvar, axis=0)
                     vals=newvar.copy()
                newvarobj[:] = newvar

            else:
                vardims=list(var.dimensions)
                if searchInlist(vardims,varinf.dimns[dimension]):
##                    print '    ' + fname + ' variable ' + vname + ' has also the increased dimension!'
                    vardim=vardims.index(varinf.dimns[dimension])
                    for ival in range(Nvals):
                        addvalvar = addval
                        newvar = np.insert(vals, pos, addvalvar, axis=vardim)
                        vals=newvar.copy()
                    newvarobj[:] = newvar
                else:
                    newvarobj[:] = vals

        for vattr in varobj.ncattrs():
            if not vattr == '_FillValue':
                vattrval = var.getncattr(vattr)
                newvarobj = set_attribute(newvarobj, vattr, vattrval)

# Global attributes
##
    for gattr in ncfa.ncattrs():
        gattrval = ncfa.getncattr(gattr)
        newnc = set_attribute(newnc, gattr, gattrval)

    newnc.sync()
    newnc.close()
    ncfa.close()
    try:
        ins = 'cp ' + newf + ' ' + filename
        syscode = sub.call(ins, shell=True)
 
        if not syscode == 0:
            print errmsg
            print "  Copy to the new file failed!"
            print ins
            print syscode
            quit()
        else:
            sub.call('rm ' + newf, shell=True)

    except OSError, e:
        print errmsg
        print "   Copy failed!"
        print e
        quit(-1)    

    return

def TimeInf(filename, tname):
    """ Function to print all the information from the variable time
    filename= netCDF file name
    tname= name of the variable time
    """

    ncfobj = NetCDFFile(filename,'r')
    timeinf = cls_time_information(ncfobj, tname)
    fmtprinting_class(timeinf)
    ncfobj.close()

    return

def sorttimesmat(filename, tname):
    """ Function to sort the time values of a given file
    tname, name of the variable time
    filename= netCDF file name
    """    

    fname = 'sorttimesmat'
  
    filexist(filename, errormsg, 'to sort time')
    ncft = NetCDFFile(filename,'a')

    varinfile(ncft, filename, errormsg, 'time', tname)
    timeobj = ncft.variables[tname]

    timeinf = cls_time_information(ncft, tname)
    tvals = timeobj[:]

    Ltvals = list(tvals)

    sortedtvals = sorted(Ltvals)

    tinds = np.zeros((timeinf.dimt), dtype=int)

    for it in range(timeinf.dimt):
        tinds[it] = Ltvals.index(sortedtvals[it])

    for var in ncft.variables:
        varobj = ncft.variables[var]
        if searchInlist(varobj.dimensions, tname):
            print fname + ': time-sorting variable: "' + var + '" '
            varvals = varobj[:]
            newvarvals = varvals.copy()
            for it in range(timeinf.dimt):
                if var == 'time':
                    print it, tinds[it], tvals[tinds[it]]
                newvarvals[it,] = varvals[tinds[it],]

            varobj[:] = newvarvals

    ncft.sync()
    ncft.close()

    return

def get_namelist_vars(values, namelist):
    """ Function to get namelist-like  values ([varname] = [value]) 
    get_namelist_vars(namelist)
      values= [sectionname],[kout]
        [sectionname]: name of the section from which one want the values ('all', for all)
        [kout]: kind of output
          'tex3': printed output as LaTeX table of three columns \verb+namelist_name+ & value
          'column': printed output as namelist_name value
          'dict': as two python dictionary object (namelistname, value and namelistname, sectionname)
      namelist= namelist_like file to retrieve values
    >>> get_namelist_vars('geogrid,dic','/home/lluis/etudes/domains/medic950116/namelist.wps')
    {'e_sn': '32, 97,', 'stand_lon': '0.', 'opt_geogrid_tbl_path': "'./'", 'geog_data_path': "'/home/lluis/DATA/WRF/geog'", 'pole_lat': '90.0', 'ref_lat': '35.0,', 'map_proj': "'lat-lon',", 'parent_id': '1, 1,', 'geog_data_res': "'2m','2m',", 'e_we': '32, 112,', 'dx': '0.35,', 'dy': '0.35,', 'parent_grid_ratio': '1, 3,', 'pole_lon': '0.0', 'ref_lon': '20,', 'j_parent_start': '1, 17,', 'i_parent_start': '1, 31,'}
    """

    fname = 'get_namelist_vars'

# List of characters which split pairs name/value
    valuessep = ['=']
# List of characters which indicate a comment
    commentchars = ['#']

    if values == 'h':
        print fname + '_____________________________________________________________'
        print get_namelist_vars.__doc__
        quit()

    expectargs = '[sectionname],[kout]'
    gen.check_arguments(fname,values,expectargs,',')

    secname = values.split(',')[0]
    kout = values.split(',')[1]

    if not os.path.isfile(namelist):
        print errormsg
        print '  ' + fname + ": namelist file '" + namelist + "' does not exist !!"
        quit(-1)

    ncml = open(namelist, 'r')

    sections = {}
    namelistvals = {}
    namelistsecs = {}
    sectionnames = []
    namessec = []
    allnames = []
    namelistvalssec = {}
    namelistsecssec = {}
    nmlname = ''
    sectionname = ''

    for line in ncml:
        linevals = gen.reduce_spaces(line)
        Nvals = len(linevals)

        if Nvals >= 1 and linevals[0][0:1] == '&':
            if len(sectionnames) > 1:
                sections[sectionname] = namessec

            sectionname = linevals[0][1:len(linevals[0])+1]
#            print '    ' + fname + ": new section '" + sectionname + "' !!!"
            sectionnames.append(sectionname)
            namessec = []
            nmlname = ''
        elif Nvals >= 1 and not gen.searchInlist(commentchars,linevals[0][0:1]):
            if Nvals >= 3 and gen.searchInlist(valuessep,linevals[1]):
                nmlname = linevals[0]
                nmlval = gen.numVector_String(linevals[2:Nvals],' ')
            elif Nvals == 1:
                for valsep in valuessep:
                    if linevals[0].find(valsep) != -1:
                        nmlname = linevals[0].split(valsep)[0]
                        nmlval = linevals[0].split(valsep)[1]
                        break
            elif Nvals == 2:
                for valsep in valuessep:
                    if linevals[0].find(valsep) != -1:
                        nmlname = linevals[0].split(valsep)[0]
                        nmlval = linevals[1]
                        break
                    elif linevals[1].find(valsep) != -1:
                        nmlname = linevals[0]
                        nmlval = linevals[1].split(valsep)[0]
                        break
            else:
                print warnmsg
                print '  ' + fname + ': wrong number of values', Nvals,              \
                  'in the namelist line!'
                print '    line: ',line
                print '    line values:',linevals
#                quit(-1)

            namelistvals[nmlname] = nmlval
            namelistsecs[nmlname] = sectionname

            namessec.append(nmlname)
            allnames.append(nmlname)

    if len(sectionname) > 1:
        sections[sectionname] = namessec

    if secname != 'all':
        if not gen.searchInlist(sections.keys(),secname):
            print errormsg
            print '  ' + fname + ": section '" + values + "' does not exist !!"
            print '    only found:',sectionnames
            quit(-1)

        namestouse = []
        for nml in allnames:
            for nnml in sections[secname]:
                namelistvalssec[nnml] = namelistvals[nnml]
                namelistsecssec[nnml] = secname
                if nml == nnml: namestouse.append(nml)
    else:
        namestouse = allnames
        namelistvalssec = namelistvals
        namelistsecssec = namelistsecs

    if kout == 'tex3':
        ofile='get_namelist_vars_3col.tex'
        fobj = open(ofile, 'w')

        vals = namestouse
        Nvals = len(vals)
        Nvals3 = int(Nvals/3)
        latextab = '\\begin{center}\n\\begin{tabular}{lclclc}\n'
        for il in range(2):
            latextab = latextab + '{\\bfseries{name}} & {\\bfseries{value}} & '
        latextab= latextab+ '{\\bfseries{name}} & {\\bfseries{value}} \\\\ \\hline\n'

        if np.mod(Nvals,3) != 0:
            Nvals0 = Nvals - np.mod(Nvals,3)
        else:
            Nvals0 = Nvals

        for ival in range(0,Nvals0,3):
            line = ''
            print '  ival:',ival
            for il in range(2):
                line = line + '\\verb+' + vals[ival+il] + '+ & ' +                   \
                   namelistvalssec[vals[ival+il]].replace('_','\\_') +' & '
            line = line + '\\verb+' + vals[ival+2] + '+ & ' +                       \
               namelistvalssec[vals[ival+2]].replace('_','\\_') + ' \\\\\n'
            latextab = latextab + line

        latextab = latextab + '%not multiple of three!!!!\n'
        print 'mod:', np.mod(Nvals,3),Nvals0,Nvals
        if np.mod(Nvals,3) != 0:
            ival = Nvals0
            line = ''
            for il in range(np.mod(Nvals,3)):
                print 'ival:',ival + il
                line = line + '\\verb+' + vals[ival+il] + '+ & ' +                   \
                      namelistvalssec[vals[ival+il]].replace('_','\\_') + ' & '
            for il in range(2-np.mod(Nvals,3)):
                line = line + ' & & '
            latextab = latextab + line + ' & \\\\\n'
        latextab = latextab + '\\end{tabular}\n\\end{center}\n'

#        print latextab
        fobj.write(latextab)
 
        fobj.close()
        print fname + ": successful writen '" + ofile + "' LaTeX tale file !!"

        return 
    elif kout == 'column':
        for dictv in namestouse:
            print dictv + ' = ' + namelistvalssec[dictv]
        return
    elif kout == 'dict':
        return namelistvalssec, namelistsecssec
    else:
        print errormsg
        print '  ' + fname + ": kind of output '" + kout + "' not ready!!!"
        quit(-1)

    return

def check_times_file(values, filename, timen):
    """ Function to check time-steps of a given file
    values=[FirstDate]:[LastDate][freq]:[auxmonth]
      [FirstDate] = first date within file (in [YYYY][MM][DD][HH][MI][SS] format)
      [LastDate] = last date within file (in [YYYY][MM][DD][HH][MI][SS] format)
      [freq] = frequency of the data within the file (in time units) or 'month' (monthly values)
      [auxmonth] = in case of 'month'
        midmon: dates are given according to the mid time value of the month
        real: dates are given increassing a month from the previous date
    filename: name of the file
    timen: name of the variable time
    """
    import datetime as dt
    fname = 'check_times_file'

    FirstDate = values.split(':')[0]
    LastDate = values.split(':')[1]
    freq = values.split(':')[2]

    ncft = NetCDFFile(filename, 'r')

    varinfile(ncft, filename, errormsg, '', timen)

    timeobj=ncft.variables[timen]
    timeinf = cls_time_information(ncft, timen)

    timevals = timeobj[:]
    ncft.close()

    yrf=int(FirstDate[0:4])
    monf=int(FirstDate[4:6])
    dayf=int(FirstDate[6:8])
    horf=int(FirstDate[8:10])
    minf=int(FirstDate[10:12])
    secf=int(FirstDate[12:14])
 
    firstdate = dt.datetime(yrf, monf, dayf, horf, minf, secf)

    yrl=int(LastDate[0:4])
    monl=int(LastDate[4:6])
    dayl=int(LastDate[6:8])
    horl=int(LastDate[8:10])
    minl=int(LastDate[10:12])
    secl=int(LastDate[12:14])
 
    lastdate = dt.datetime(yrl, monl, dayl, horl, minl, secl)

    firstT = firstdate - timeinf.refdate
    t0 = diffdate_units(firstT, timeinf.units)

    period = lastdate - firstdate
    per = diffdate_units(period, timeinf.units)

    if freq != 'month':
        theordimt = np.int(per / np.float64(freq) + 1)
    else:
        theordimt = np.int((yrl - yrf + 1) * 12)

    theordates = np.zeros((theordimt), dtype=np.float64)
    theordates[0] = t0
    if freq != 'month':
        theordates = t0 + np.arange(1,theordimt) * np.float64(freq)
    else:
        auxmonth = values.split(':')[3]
        if auxmonth == 'midmon':
            t01 = np.array([yrf, monf, 1, 0, 0, 0])
        else:
            t01 = np.array([yrf, monf, dayf, horf, minf, secf])

        for it in range(1,theordimt):
            t02 = t01.copy()
            t02[1] = t02[1] + 1
            if t02[1] > 12:
                t02[1] = 1
                t02[0] = t02[0] + 1

            date01 = dt.datetime(t01[0], t01[1], t01[2], t01[3], t01[4], t01[5])

            if auxmonth == 'midmon':
                date02 = dt.datetime(t02[0], t02[1], t02[2], t02[3], t02[4], t02[5])
                diff012 = date02 - date01
                t01 = diffdate_units(date01 - timeinf.refdate, timeinf.units)
                theordates[it] = t01 + diffdate_units(diff012, timeinf.units) / 2.
            elif auxmonth == 'real':
                date02 = dt.datetime(t02[0], t02[1], t01[2], t01[3], t01[4], t01[5])
                diff012 = date02 - date01
                theordates[it] = theordates[it-1] + diffdate_units(diff012, timeinf.units)
            else:
                print errormsg
                print fname + ': frequency "month" required third argument "' + auxmonth + '" not ready!!!!'
                print errormsg
                quit(-1)

            t01 = t02.copy()        

    equaldates = sorted(list(set(theordates) & set(timevals)))
    missdates = sorted(list(set(theordates) - set(timevals)))

    Nequal = len(equaldates)
    Ndiff = len(missdates)

    if theordimt != timeinf.dimt:
        print warnmsg
        print fname + ': there are not the correspondant times (', theordimt ,') in file "' + filename + '" with ', timeinf.dimt,' time-steps !!!!!!!'
        print '    ' + fname + ': Number equal times-steps: ', Nequal, 'Number different time-steps: ', Ndiff

        if Nequal >= Ndiff or Nequal == 0:
            matdates = netCDFdatetime_realdatetime(timeinf.unitsval, timeinf.calendar, missdates)
            print '  file does not have dates: '
            for it in range(Ndiff):
                print matdates[it,:]
        else:
            matdates = netCDFdatetime_realdatetime(timeinf.unitsval, timeinf.calendar, equaldates)
            print '  file only has: '
            for it in range(Nequal):
                print matdates[it,:]

    return

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
    """
    fname = 'writing_str_nc'

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

        for ich in range(Lstr):
            chrv = stringv[ich:ich+1]
            charvals[ich] = stringv[ich:ich+1]
        varo[iv,:] = charvals

    return

def writing_1str_nc(varo, values, Lchar):
    """ Function to write 1 string value 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
    """

    stringv=values
    charvals = np.chararray(Lchar)
    Lstr = len(stringv)
    charvals[Lstr:Lchar] = ''

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

    varo[:] = charvals

    return

def get_1str_nc(varo, Lchar):
    """ Function to get 1 string value in a netCDF variable as a chain of 1char values
    varo= netCDF variable object
    Lchar = length of the string in the netCDF file
    """

    string = ''

    for ich in range(Lchar):
        charval =  str(stringv[ich:ich+1]).replace('[','').replace(']','')
        if charval == '':
            break
        else:
            if ich == 0:
                string = charval
            else:
                string = string + charval
        
    return string

def get_str_nc(varo, Lchar):
    """ Function to get string values in a netCDF variable as a chains of 1char values
    varo= netCDF variable object
    Lchar = length of the string in the netCDF file
    """
    fname = 'get_str_nc'

    Nvalues = varo.shape[0]

    strings = []

    for ival in range(Nvalues):
        stringv = varo[ival,:]
        string = str('')
        for ich in range(Lchar):
            charval = str(stringv[ich:ich+1]).replace('[','').replace(']','').replace("'","")
            if charval == '--' or len(charval) == 0:
                break
            else:
                if ich == 0:
                    string = charval
                else:
                    string = string + charval

        strings.append(string.strip())

    return strings

def get_str_nc_word(varo, Lchar):
    """ Function to get string values in a netCDF variable as a chains of 1char values
    varo= netCDF variable object
    Lchar = length of the string in the netCDF file
    """

    Nvalues = varo.shape[0]

    strings = []

    for ival in range(Nvalues):
        stringv = varo[ival]
        string = str('')
        for ich in range(Lchar):
            charval = str(stringv[ich:ich+1]).replace('[','').replace(']','')
            if charval == '--':
                break
            else:
                if ich == 0:
                    string = charval
                else:
                    string = string + charval

        strings.append(string)

    return strings

def remapnn(values, filename, varname):
    """ Function to remap to the nearest neightbor a variable using projection from another file
    values=[newprojectionfile]|[newlonname,newlatname]|[newlondim,newlatdim]|[oldlonname,oldlatname]|
     [oldlondim,oldlatdim]
      [newprojectionfile]: name of the file with the new projection
      [newlonname,newlatname]: name of the longitude and the latitude variables in the new file
      [newlondim,newlatdim]: name of the dimensions for the longitude and the latitude in the new file
      [oldlonname,oldlatname]: name of the longitude and the latitude variables in the old file
      [oldlondim,oldlatdim]: name of the dimensions for the longitude and the latitude in the old file
    filename= netCDF file name
    varn= variable name ('all', for all variables)
    """ 
    fname = 'remapnn'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print remapnn.__doc__
        quit()

    expectargs = '[newprojectionfile]|[newlonname,newlatname]|[newlondim,' +         \
      'newlatdim]|[oldlonname,oldlatname]|[oldlondim,oldlatdim]'
 
    check_arguments(fname,values,expectargs,'|')

    newprojectionfile = values.split('|')[0]
    newlonlatname = values.split('|')[1]
    newlonlatdim = values.split('|')[2].split(',')
    oldlonlatname = values.split('|')[3]
    oldlonlatdim = values.split('|')[4].split(',')

    if varname != 'all':
        ofile = 'remapnn_' + varname + '.nc'
    else:
        ofile = 'remapnn_allvars.nc'

    filexist(filename, errormsg, 'old file')
    filexist(newprojectionfile, errormsg, 'new file')

    oldlon=oldlonlatname.split(',')[0]
    oldlat=oldlonlatname.split(',')[1]

    oldncfile = NetCDFFile(filename,'r')
    varinfile(oldncfile, filename, errormsg, 'old', oldlon)
    varinfile(oldncfile, filename, errormsg, 'old', oldlat)

    newlon=newlonlatname.split(',')[0]
    newlat=newlonlatname.split(',')[1]

    newncfile = NetCDFFile(newprojectionfile,'r')
    varinfile(newncfile, newprojectionfile, errormsg, 'new', newlon)
    varinfile(newncfile, newprojectionfile, errormsg, 'new', newlat)

    oldlon2d, oldlat2d = lonlat2D(oldncfile.variables[oldlon],                       \
      oldncfile.variables[oldlat])
    newlon2d, newlat2d = lonlat2D(newncfile.variables[newlon],                       \
      newncfile.variables[newlat])

    newdimx = newlon2d.shape[1]
    newdimy = newlon2d.shape[0]

    olddimx = oldlon2d.shape[1]
    olddimy = oldlon2d.shape[0]

# We are going to do the search in two phases
#   1.- Searching on grid points every 10% of the size of the origina domain
#   2.- Within the correspondant box of 20%x20% percent

# 1.- first pairs old-->new
##
    dx10 = int(olddimx/10)
    dy10 = int(olddimy/10)

    oldlon2d10 = oldlon2d[slice(dy10,olddimy,dy10), slice(dx10,olddimx,dx10)]
    oldlat2d10 = oldlat2d[slice(dy10,olddimy,dy10), slice(dx10,olddimx,dx10)]

    firstmappairs = np.ones((2, newdimy, newdimx), dtype=int)
    print '     ' + fname + ' first searching nearest neighbor by',dx10,',',dy10,'...'
    for jnew in range(newdimy):
        for inew in range(newdimx):
            dist=np.sqrt((newlon2d[jnew, inew] - oldlon2d10)**2. +                   \
              (newlat2d[jnew, inew] - oldlat2d10)**2.)
            mindist = np.min(dist)
            minydist10, minxdist10 = index_mat(dist,mindist)
            firstmappairs[:,jnew,inew] = [int(dy10*(1+minydist10)),                  \
              int(dx10*(1+minxdist10))]

# 2.- Looking around the closest coarse point
##
    mappairs = np.ones((2, newdimy, newdimx), dtype=int)
    dx2 = dx10/2
    dy2 = dy10/2

    print '     ' + fname + ' searching nearest neighbor...'
    for jnew in range(newdimy):
        for inew in range(newdimx):
            i10 = firstmappairs[1,jnew,inew]
            j10 = firstmappairs[0,jnew,inew]

            imin = np.max([i10-dx2, 0])
            imax = np.min([i10+dx2, olddimx+1])
            jmin = np.max([j10-dy2, 0])
            jmax = np.min([j10+dy2, olddimy+1])

            oldlon2d2 = oldlon2d[slice(jmin,jmax), slice(imin,imax)]
            oldlat2d2 = oldlat2d[slice(jmin,jmax), slice(imin,imax)]

            dist=np.sqrt((newlon2d[jnew, inew] - oldlon2d2)**2. +                    \
              (newlat2d[jnew, inew] - oldlat2d2)**2.)
#            print 'oldlon2d2________________',i10,j10
#            print oldlon2d2
#            print 'oldlat2d2________________'
#            print oldlat2d2
#            print 'dist________________'
#            print dist

            mindist = np.min(dist)
            minydist, minxdist = index_mat(dist,mindist)
            mappairs[:,jnew,inew] = [int(j10+minydist), int(i10+minxdist)]
#            print jnew,inew,'|',firstmappairs[:,jnew,inew],':',minxdist,minydist,    \
#              'final:',mappairs[:,jnew,inew],'lon,lat old:',oldlon2d[minydist,minxdist],\
#              oldlat2d[minydist,minxdist], 'new:', newlon2d[jnew, inew],             \
#              newlat2d[jnew, inew],'mindist:',mindist


#            quit()

# Creation of the new file
##
    ncfnew = NetCDFFile(ofile,'w')
   
    for dn in oldncfile.dimensions:
        if dn == oldlon:
            ncfnew.createDimension(newlonlatdim[0], newdimx)
        elif dn == oldlat:
            ncfnew.createDimension(newlonlatdim[1], newdimy)
        else:
            if oldncfile.dimensions[dn].isunlimited():
                ncfnew.createDimension(dn, None)
            else:
                ncfnew.createDimension(dn, len(oldncfile.dimensions[dn]))

    ncfnew.sync()

# looping along all the variables
##
    if varname == 'all':
        oldvarnames = oldncfile.variables
    else:
        oldvarnames = [varname]

    for varn in oldvarnames:
        print '  adding:',varn,'...'
        ovar = oldncfile.variables[varn]
        vardims = ovar.dimensions
        vartype = ovar.dtype
        varattrs = ovar.ncattrs()

#       Looking if variable has lon and/or lat:
        varlonlat = False
        if searchInlist(vardims, oldlonlatdim[0]): varlonlat = True
        if searchInlist(vardims, oldlonlatdim[1]): varlonlat = True

        if varn != oldlon and varn != oldlat and varlonlat:
            newvarshape = []
            newvardimn = []
            newslice = []
            oldslice = []
            for dn in vardims:
                if dn == oldlat:
                    newvarshape.append(newdimy)
                    newvardimn.append(newlonlatdim[1])
                elif dn == oldlon:
                    newvarshape.append(newdimx)
                    newvardimn.append(newlonlatdim[0])
                else:
                    newvarshape.append(len(oldncfile.dimensions[dn]))
                    newvardimn.append(dn)
                    newslice.append(slice(0,len(oldncfile.dimensions[dn])))
                    oldslice.append(slice(0,len(oldncfile.dimensions[dn])))

            newvarval = np.zeros(tuple(newvarshape), dtype=vartype)

            for jnew in range(newdimy):
                for inew in range(newdimx):
                    oldslice0 = oldslice[:]
                    newslice0 = newslice[:]

                    if searchInlist(vardims,oldlat):
                        oldslice0.append(mappairs[0,jnew,inew])
                        newslice0.append(jnew)

                    if searchInlist(vardims,oldlon):
                        oldslice0.append(mappairs[1,jnew,inew])
                        newslice0.append(inew)

#                    if ((jnew*newdimx + inew)%100 == 0): print '      ' + fname + ': ',  \
#                      '{0:5.2f}'.format(float((jnew*newdimx + inew)*100./(newdimx*newdimy))),\
#                       '% done'

#                    print 'slices new:',newslice0,'old:',oldslice0
                    newvarval[tuple(newslice0)] = ovar[tuple(oldslice0)]

        elif varn == oldlon:
            ovar = newncfile.variables[newlon]
            vardims = ovar.dimensions
            vartype = ovar.dtype
            varattrs = ovar.ncattrs()

            newvardimn = (newlonlatdim[1], newlonlatdim[0])
            newvarval = newlon2d

        elif varn == oldlat:
            ovar = newncfile.variables[newlat]
            vardims = ovar.dimensions
            vartype = ovar.dtype
            varattrs = ovar.ncattrs()

            newvardimn = (newlonlatdim[1], newlonlatdim[0])
            newvarval = newlat2d

        else:
            newvardimn = vardims
            newvarval = ovar[:]

        if searchInlist(varattrs, '_FillValue'):
            fvalv = ovar.getncattr('_FillValue')
            newvar = ncfnew.createVariable(varn, vartype, tuple(newvardimn),         \
              fill_value=fvalv)
        else:
            newvar = ncfnew.createVariable(varn, vartype, tuple(newvardimn))

        for ncattr in varattrs:
            if ncattr != '_FillValue':
                attrv = ovar.getncattr(ncattr)
                newattr = set_attribute(newvar,ncattr,attrv)
                
        attr = newvar.setncattr('mask', 'variable remapped at nearest neighbors ' +  \
          'using ' + values.split(':')[0] + ' using as longitude and latitude values ')

        newvar[:] = newvarval


    ncfnew.sync()
    ncfnew.close()

    newncfile.close()
    oldncfile.close()

# Adding attributes
    fgaddattr(filename, ofile)

    print 'remapnn: new file "' + ofile + '" with remapped variable written !!'

    return

#remapnn('met_em.d01.1979-01-01_00:00:00.nc|XLONG_M,XLAT_M|east_weast,south_north|longitude,latitude|longitude,latitude', \
#  'Albedo.nc', 'all')
#quit()

def remapnn_old(values, filename, varn, ddegL, ddegl):
    """ Function to remap to the nearest neightbor a variable using projection from another file
    values=[newprojectionfile]:[newlonname,newlatname]:[oldlonname,oldlatname]
      [newprojectionfile]: name of the file with the new projection
      [newlonname,newlatname]: name of the longitude and the latitude variables in the new file
      [oldlonname,oldlatname]: name of the longitude and the latitude variables in the old file
    filename= netCDF file name
    varn= variable name
    ddegL= Longitude range around the old grid point to speed up the search
    ddegl= latitude range around the old grid point to speed up the search
    """ 
    fname = 'remapnn'
    ofile = 'remapnn_' + varn + '.nc'
    fillValue = 1.e20

    newprojectionfile = values.split(':')[0]
    newlonlatname = values.split(':')[1]
    oldlonlatname = values.split(':')[2]

    filexist(filename, errormsg, 'old file')
    filexist(newprojectionfile, errormsg, 'new file')

    oldlon=oldlonlatname.split(',')[0]
    oldlat=oldlonlatname.split(',')[1]

    oldncfile = NetCDFFile(filename,'r')
    varinfile(oldncfile, filename, errormsg, 'old', oldlon)
    varinfile(oldncfile, filename, errormsg, 'old', oldlat)

    newlon=newlonlatname.split(',')[0]
    newlat=newlonlatname.split(',')[1]

    newncfile = NetCDFFile(newprojectionfile,'r')
    varinfile(newncfile, newprojectionfile, errormsg, 'old', newlon)
    varinfile(newncfile, newprojectionfile, errormsg, 'old', newlat)

    oldlon2d, oldlat2d = lonlat2D(oldncfile, oldlon, oldlat)
    newlon2d, newlat2d = lonlat2D(newncfile, newlon, newlat)

    newdimx = newlon2d.shape[1]
    newdimy = newlon2d.shape[0]

    olddimx = oldlon2d.shape[1]
    olddimy = oldlon2d.shape[0]

# pairs old-->new
##
    mappairs = np.ones((2, newdimy, newdimx), dtype=int)
    mappairs = mappairs*fillValue
    print '     ' + fname + ' searching nearest neighbor...'
    for jnew in range(newdimy):
        for inew in range(newdimx):
            if ((jnew*newdimx + inew)%100 == 0): print '      ' + fname + ' found: ', '{0:5.2f}'.format(float(jnew*newdimx + inew)*100/(newdimx*newdimy*1)), '%'

            masklonoldpt1 = oldlon2d >= newlon2d[jnew, inew] - float(ddegL)
            masklonoldpt2 = oldlon2d <= newlon2d[jnew, inew] + float(ddegL)
            masklonoldpt = masklonoldpt1 * masklonoldpt2
            masklatoldpt1 = oldlat2d >= newlat2d[jnew, inew] - float(ddegl)
            masklatoldpt2 = oldlat2d <= newlat2d[jnew, inew] + float(ddegl)
            masklatoldpt = masklatoldpt1 * masklatoldpt2

            Nmasklon = np.sum(masklonoldpt)
            Nmasklat = np.sum(masklatoldpt)

            if Nmasklon > 0 and Nmasklat > 0:
##                print newlon2d[jnew, inew], newlat2d[jnew, inew], ' ### ', np.min(oldlon2d), np.max(oldlon2d), ':', np.min(oldlat2d), np.max(oldlat2d)
##                print masklonoldpt.shape, masklatoldpt.shape, Nmasklon, Nmasklat
                maskindlon = indices_mask(masklonoldpt)
                maskindlat = indices_mask(masklatoldpt)

                mindist=1000000.
#            for jold in range(olddimy):
#                for iold in range(olddimx):
#                   dist=np.sqrt((oldlon2d[jold, iold] - newlon2d[jnew, inew])**2. + \
#                     (oldlat2d[jold, iold] - newlat2d[jnew, inew])**2.)
                for jold in range(Nmasklat):
                    for iold in range(Nmasklon):
                       if maskindlon[iold,0] == maskindlat[jold,0] and maskindlon[iold,1] == maskindlat[jold,1]:
                           dist=np.sqrt((newlon2d[jnew, inew] - oldlon2d[maskindlon[iold,0], maskindlon[iold,1]])**2. + \
                             (newlat2d[jnew, inew] - oldlat2d[maskindlat[jold,0], maskindlat[jold,1]])**2.)
##                           print jold, iold, ':' , maskindlon[iold,:], '-->', maskindlat[jold,:], '**** L:', \
##                             oldlon2d[maskindlon[iold,0], maskindlon[iold,1]], 'l', oldlat2d[maskindlat[jold,0], maskindlat[jold,1]], \
##                             'dist:',dist, 'mindist: ', mindist
                           if dist < mindist:
                               mindist = dist
##                               print jold, iold, 'dist: ', dist, 'L', maskindlon[iold,:], 'l', maskindlat[jold,:]
                               mappairs[0, jnew, inew] = maskindlon[iold,1]
                               mappairs[1, jnew, inew] = maskindlat[jold,0]

##                quit()

    varobj = oldncfile.variables[varn]
    varinf = variable_inf(varobj)

# Creation of the new file
##
    ncfnew = NetCDFFile(ofile,'w')
   
    for idim in range(varinf.Ndims):
        newdimv = oldncfile.dimensions[varinf.dimns[idim]]
        if dimensions[varinf.dimns[idim]] == oldlon or dimensions[varinf.dimns[idim]] == oldlat:
            if dimensions[varinf.dimns[idim]] == oldlon:
                ncfnew.createDimension(varinf.dimns[idim], newdimx)
            else:
                ncfnew.createDimension(varinf.dimns[idim], newdimy)
        else:
            if newdimv.isunlimited():
                ncfnew.createDimension(varinf.dimns[idim], None)
            else:
                ncfnew.createDimension(varinf.dimns[idim], varinf.dims[idim])

    newvar = ncfnew.createVariable(varn, varinf.dtype, varinf.dimns, fill_value=fillValue)
    for attrn in varinf.attributes:
        if not attrn == '_FillValue':
            attr = newvar.setncattr(attrn, varobj.getncattr(attrn))

    attr = newvar.setncattr('mask', 'variable remapped at nearest neighbors using ' + values.split(':')[0] + ' using ' + \
      ' as longitude and latitude valules ')

    ncfnew.sync()
    ncfnew.close()

    for varns in ncf.variables:
        if not varns == varn:
            fvaradd(filename + ',' + varns, ofile)
        elif varns == oldlon:
            fvaradd(newprojectionfile + ',' + newlon, ofile)
        elif varns == oldlat:
            fvaradd(newprojectionfile + ',' + newlat, ofile)

    chvarname(oldlon, ofile, newlon)
    chvarname(oldlat, ofile, newlat)

    ncfnew = NetCDFFile(ofile,'a')

# looping on all the variable
##
    varsecdims = []
    Nvarloop=1
    for insdim in range(varinf.Ndims - 2):
        Nvarloop = Nvarloop * varinf.dims[insdim]
        varsecdims.append(0)

    Nsecdims = len(varsecdims)

    for iloop in range(Nvarloop):
        varval = load_ncvariable_lastdims(oldncfile, varn, varsecdims, 2)
        for jnew in range(newdimy):
            for inew in range(newdimx):
                if ((jnew*newdimx + inew)%100 == 0): print '      ' + fname + ': ', '{0:5.2f}'.format(float((jnew*newdimx + inew)*100./(newdimx*newdimy))), '% done'
                newvarval[jnew, inew] = varval[mappairs[jnew, inew, 0], mappairs[jnew, inew, 1]]
                
        fill_ncvariable_lastdims(ncfnew,varn,varsecdims,2,newvarval)

        varsecdims[Nsecdims -1] = varsecdims[Nsecdims - 1] + 1
        if varsecdims[Nsecdims - 1] > varinf.dims[Nsecdims - 1] - 1:
            varsecdims[Nsecdims - 1] = 0
            for jdim in range(Nsecdims - 1):
                varsecdims[Nsecdims - 2 - jdim] = varsecdims[Nsecdims - 2 - jdim] + 1
                if varsecdims[Nsecdims - 2 - jdim] <= varinf.dims[Nsecdims - 2 - jdim] - 1:
                    break
                else:
                    varsecdims[Nsecdims - 2 - jdim] = 0

    ncfnew.sync()
    ncfnew.close()

    print 'remapnn: new file "' + ofile + '" with remapped variable written !!'

    return
#remapnn('data/R1_CCRC_NARCliM_MOM_1950-2009_pracc.nc:lon,lat:lon,lat', 'data/AWAP_pre_1950-2009_pre_mask.nc', 'pre', 1. , 1.)
#quit()

def checkallvars(values, filen):
    """ Function to check all variables of a file
    values=[dimn1],[[dimn2],...,[dimnN]]:[dim1],[[dim2],...,[dimN]]
      [dimn1/N]: name of dimension
      [dim1/N]: value for the given dimension
        [0-N]: dimension value
        -1: last value
        -2: half of the dimension size
        -3: all values
    filen=name of the netCDF file to check
    """
    fname = "'checkallvars'"

    dimns = values.split(':')[0].split(',')
    dims0 = np.array(values.split(':')[1].split(','))
    Ndims = len(dimns)
    dims = np.zeros( (Ndims), dtype=np.int)
    dimvals = np.zeros( (Ndims), dtype=np.int)

    ncobj = NetCDFFile(filen,'r')

    for idim in range(Ndims):
        dims[idim] = np.int(dims0[idim])
        if not ncobj.dimensions.has_key(dimns[idim]):
            print errormsg
            print '  ' + fname + " file '" + filen + "' does not have dimension '" + dimns[idim] + "' !!!!"
            quit(-1)

        sizedim = len(ncobj.dimensions[dimns[idim]])
        if dims[idim] == -3:
            dimvals[idim] = -1
        elif dims[idim] == -2:
            dimvals[idim] = sizedim/2
        elif dims[idim] == -1:
            dimvals[idim] = sizedim-1
        else:
            dimvals[idim] = dims[idim]
             
        print "  dimension '" + dimns[idim] + "' of size: ",sizedim,' shown at :',\
          dimvals[idim]

    ivar = 1
    for varn in ncobj.variables:
        varobj = ncobj.variables[varn]
        varinf = variable_inf(varobj)
        dimsvar = np.zeros( (varinf.Ndims), dtype=np.int)
        dimsvar[:] = -9
        for ivardim in range(varinf.Ndims):
            vardimn = varinf.dimns[ivardim]
            for idim in range(Ndims):
                if vardimn == dimns[idim]: dimsvar[ivardim] = dimvals[idim]
            if dimsvar[ivardim] == -9:
                print errormsg
                print '  ' + fname + " No value given to the dimension '" + vardimn +\
                   "' !!"
                quit(-1)

        print ivar, ':', varn + ' with: ', varinf.dimns,' outputted as: ',dimsvar,' ___________________'
        if varinf.Ndims == 1:
            if dimsvar == -1:
                varvals = varobj[:]
            else:
                varvals = varobj[dimsvar]
        elif varinf.Ndims == 2:
            if dimsvar[0] == -1 and dimsvar[1] == -1:
                varvals = varobj[:]
            elif dimsvar[0] == -1 and dimsvar[1] != -1:
                varvals = varobj[:,dimsvar[1]]
            elif dimsvar[0] != -1 and dimsvar[1] == -1:
                varvals = varobj[dimsvar[0],:]
            else:
                varvals = varobj[dimsvar[0],dimsvar[1]]
        elif varinf.Ndims == 3:
            if dimsvar[0] == -1 and dimsvar[1] == -1 and dimsvar[2] == -1:
                varvals = varobj[:]
            elif dimsvar[0] == -1 and dimsvar[1] == -1 and dimsvar[2] != -1:
                varvals = varobj[:,:,dimsvar[2]]
            elif dimsvar[0] == -1 and dimsvar[1] != -1 and dimsvar[2] == -1:
                varvals = varobj[:,dimsvar[1],:]
            elif dimsvar[0] != -1 and dimsvar[1] == -1 and dimsvar[2] == -1:
                varvals = varobj[dimsvar[0],:,:]
            elif dimsvar[0] == -1 and dimsvar[1] != -1 and dimsvar[2] != -1:
                varvals = varobj[:,dimsvar[1],dimsvar[2]]
            elif dimsvar[0] != -1 and dimsvar[1] != -1 and dimsvar[2] == -1:
                varvals = varobj[dimsvar[0],dimsvar[1],:]
            elif dimsvar[0] != -1 and dimsvar[1] == -1 and dimsvar[2] != -1:
                varvals = varobj[dimsvar[0],:,dimsvar[2]]
            else:
                varvals = varobj[dimsvar[0],dimsvar[1],dimsvar[2]]
        elif varinf.Ndims == 4:
            if dimsvar[0] == -1 and dimsvar[1] == -1 and dimsvar[2] == -1 and dimsvar[3] == -1:
                varvals = varobj[:]
            elif dimsvar[0] == -1 and dimsvar[1] == -1 and dimsvar[2] == -1 and dimsvar[3] != -1:
                varvals = varobj[:,:,:,dimsvar[2]]
            elif dimsvar[0] == -1 and dimsvar[1] == -1 and dimsvar[2] != -1 and dimsvar[3] == -1:
                varvals = varobj[:,:,dimsvar[2],:]
            elif dimsvar[0] == -1 and dimsvar[1] != -1 and dimsvar[2] == -1 and dimsvar[3] == -1:
                varvals = varobj[:,dimsvar[1],:,:]
            elif dimsvar[0] != -1 and dimsvar[1] == -1 and dimsvar[2] == -1 and dimsvar[3] == -1:
                varvals = varobj[dimsvar[0],:,:,:]
            elif dimsvar[0] == -1 and dimsvar[1] == -1 and dimsvar[2] != -1 and dimsvar[3] != -1:
                varvals = varobj[:,:,dimsvar[2],dimsvar[3]]
            elif dimsvar[0] == -1 and dimsvar[1] != -1 and dimsvar[2] == -1 and dimsvar[3] != -1:
                varvals = varobj[:,dimsvar[1],:,dimsvar[3]]
            elif dimsvar[0] != -1 and dimsvar[1] == -1 and dimsvar[2] == -1 and dimsvar[3] != -1:
                varvals = varobj[dimsvar[1],:,:,dimsvar[3]]
            elif dimsvar[0] == -1 and dimsvar[1] != -1 and dimsvar[2] != -1 and dimsvar[3] == -1:
                varvals = varobj[:,dimsvar[1],dimsvar[2],:]
            elif dimsvar[0] != -1 and dimsvar[1] == -1 and dimsvar[2] != -1 and dimsvar[3] == -1:
                varvals = varobj[dimsvar[0],:,dimsvar[2],:]
            elif dimsvar[0] != -1 and dimsvar[1] != -1 and dimsvar[2] == -1 and dimsvar[3] == -1:
                varvals = varobj[dimsvar[0],dimsvar[1],:,:]
            elif dimsvar[0] == -1 and dimsvar[1] != -1 and dimsvar[2] != -1 and dimsvar[3] != -1:
                varvals = varobj[:,dimsvar[1],dimsvar[2],dimsvar[3]]
            elif dimsvar[0] != -1 and dimsvar[1] == -1 and dimsvar[2] != -1 and dimsvar[3] != -1:
                varvals = varobj[dimsvar[0],:,dimsvar[2],dimsvar[3]]
            elif dimsvar[0] != -1 and dimsvar[1] != -1 and dimsvar[2] == -1 and dimsvar[3] != -1:
                varvals = varobj[dimsvar[0],dimsvar[1],:,dimsvar[3]]
            elif dimsvar[0] != -1 and dimsvar[1] != -1 and dimsvar[2] != -1 and dimsvar[3] == -1:
                varvals = varobj[dimsvar[0],dimsvar[1],dimsvar[2],:]
            else:
                varvals = varobj[dimsvar[0],dimsvar[1],dimsvar[2],dimvals[3]]
        else:
            print errormsg
            print '  ' + fname + ' number of dimensions ',varinf.Ndims,' not ready!!'
            quit(-1)
        print varvals    
        ivar = ivar + 1

    ncobj.close()

    return

def valmod_dim(values, ncfile, varn):
    """ Function to modify the value of a variable at a given dimension and value
    values = dimn,dimval,modins,modval1,[modval2,...]
      dimn = name of the dimension
      dimval = value of the dimension at which change the values
      modins = instruction: 
        'sumc', add [modval1]
        'subc', substraction [modval1]
        'mulc', multiply by [modval1] 
        'divc', divide by [modval1] 
        'lowthres': modify all values below [modval1] to [modval2]
        'upthres': modify all values above [modval1] to [modval2]
    ncfile = netCDF file name
    varn = name of the variable
    >>> valmod_dim('num_metgrid_levels,10,mulc,-1','aqua_met-em_control.nc','PRES')
    """
    fname = 'valmod_dim'

    if values == '-h':
        print """ Function to modify the value of a variable at a given dimension and value
          values = dimn,dimval,modins,modval1,[modval2,...]
          dimn = name of the dimension
          dimval = value of the dimension at which change the values
          modins = instruction: 
            'sumc', add [modval1]
            'subc', substraction [modval1]
            'mulc', multiply by [modval1] 
            'divc', divide by [modval1] 
            'lowthres': modify all values below [modval1] to [modval2]
            'upthres': modify all values above [modval1] to [modval2]
          ncfile = netCDF file name
          varn = name of the variable
          >>> valmod_dim('num_metgrid_levels,10,mulc,-1','aqua_met-em_control.nc','PRES')
          """
        quit()

##  mat = np.array( (range(27)), dtype=np.float).reshape(3,3,3)

    vals = values.split(',')
    Lvals = len(vals)

    dimn = vals[0]
    dimval = np.int(vals[1])
    modins = vals[2]
    modval = np.float(vals[3])
    newvalues = ','.join(vals[2:Lvals])

    if not os.path.isfile(ncfile):
      print errormsg
      print '   valmod: File "' + ncfile + '" does not exist !!'
      print errormsg
      quit(-1)    

    ncf = NetCDFFile(ncfile,'a')

    if ncf.dimensions.has_key('plev'):
      # removing pressure level from variable name
      varn = re.sub("\d+", "", varn) 

    if not ncf.dimensions.has_key(dimn):
      print errormsg
      print '   ' + fname + ': File "' + ncfile + '" does not have dimension "' +    \
        dimn + '" !!!!'
      ncf.close()
      quit(-1)

    if not ncf.variables.has_key(varn):
      print errormsg
      print '   ' + fname + ': File "' + ncfile + '" does not have variable "' +     \
        varn + '" !!!!'
      ncf.close()
      quit(-1)

    varobj = ncf.variables[varn]
    varinf = variable_inf(varobj)

    varvals = varobj[:]

# Dimension id
    iddim=varinf.Ndims - 1
    for idimn in varinf.dimns:
#        print iddim, idimn
        if dimn == idimn:
            break

        iddim = iddim - 1

    matshape = varvals.shape
    mattype = varvals.dtype
    matmask = np.zeros( tuple(matshape), dtype=bool)

    zerodims=np.ones( (6), dtype=int)
    Ndims = len(matshape)

    if Ndims > 6: 
        print errmsg
        print '  ' + fname + ' number of dimensions: ',Ndims,' not ready!!!!!'
        quit(-1)

    zerodims[5-Ndims+1:6] = matshape

    newdims = []
    for idim in range(Ndims):
#        print idim,'matshape[idim]:',matshape[Ndims-1-idim],'iddim:',iddim
        if idim != iddim:
            newdims.append(matshape[Ndims-1-idim])

    newdims.reverse()

    mask = np.zeros(tuple(zerodims), dtype=bool)
    vals = np.zeros(tuple(zerodims), dtype=mattype)
    newvals = np.zeros(tuple(zerodims), dtype=mattype)

    vals[0:zerodims[0],0:zerodims[1],0:zerodims[2],0:zerodims[3],0:zerodims[4],      \
      0:zerodims[5]] = varvals

#    print 'vals shape:',vals.shape,':',newdims

    for i5 in range(zerodims[5]):
        for i4 in range(zerodims[4]):
            for i3 in range(zerodims[3]):
                for i2 in range(zerodims[2]):
                    for i1 in range(zerodims[1]):
                        for i0 in range(zerodims[0]):
#                            print 'iddim:',iddim,'dimval:',dimval,'-->',i0,i1,i2,i3,i4,i5
                            if iddim == 5 and dimval == i0:
                                mask[i0,i1,i2,i3,i4,i5] = True
                            elif iddim == 4 and dimval == i1:
                                mask[i0,i1,i2,i3,i4,i5] = True
                            elif iddim == 3 and dimval == i2:
                                mask[i0,i1,i2,i3,i4,i5] = True
                            elif iddim == 2 and dimval == i3:
                                mask[i0,i1,i2,i3,i4,i5] = True
                            elif iddim == 1 and dimval == i4:
                                mask[i0,i1,i2,i3,i4,i5] = True
                            elif iddim == 0 and dimval == i5:
                                mask[i0,i1,i2,i3,i4,i5] = True

#    print 'newmat dim:',iddim,'val:',dimval,':',newdims,'______'
    newmat = vals[mask].reshape(tuple(newdims))
    varmod = np.zeros(tuple(newdims), dtype=mattype) 

    varshape = newmat.shape
    vartype = newmat.dtype
    Ndims = len(varshape)
      
    if Ndims <= 2:
        varmod = gen.valmodoper(newmat, newvalues)
    elif Ndims == 3:
        for i in range(varshape[0]):
            varmod[i,:,:] = gen.valmodoper(newmat[i,:,:], newvalues)
    elif Ndims == 4:
        for i in range(varshape[0]):
            for j in range(varshape[1]):
                varmod[i,j,:,:] = gen.valmodoper(newmat[i,j,:,:], newvalues)
    elif Ndims == 5:
        for i in range(varshape[0]):
            for j in range(varshape[1]):
                for k in range(varshape[2]):
                    varmod[i,j,k,:,:] = gen.valmodoper(newmat[i,j,k,:,:], newvalues)

    newvals = np.where( mask, varmod, vals)
    zerdims = np.where( zerodims == 1, 0, zerodims )

    finalvals = newvals[0:zerodims[0],0:zerodims[1],0:zerodims[2],0:zerodims[3],\
      0:zerodims[4],0:zerodims[5]]
    finalvals = np.squeeze(finalvals)

    if len(varobj.shape) != len(finalvals.shape):
        print '  Modified values have a different shape:', finalvals.shape,          \
          'than variable:', varobj.shape
        print '  Assuming that extra dimensions are at the beggining'
        newfinalvals = finalvals.reshape(varobj.shape)
        varobj[:] = newfinalvals[:]
    else:
        varobj[:] = finalvals[:]

    ncf.sync()
    ncf.close()

    return

def checkNaNs(values, filen):
    """ Function to check for NaN values over all variables in a file
    values = absolute lower threshold for NaN value
    filen=name of the netCDF file to check
    """
    fname = "'checkNaNs'"

    valthres = np.float(values)
    ncobj = NetCDFFile(filen,'r')
    S1val = np.dtype('a1') 
    Sval = np.dtype(str)
    Uval = np.dtype(unicode)

    ivar = 1
    print fname + ' checking with: ',valthres,' in _______'
    for varn in ncobj.variables:
        varobj = ncobj.variables[varn]
        varinf = variable_inf(varobj)
        varvals = varobj[:]
        var1 = varvals.flatten()[0]

        if varinf.dtype != type('c') and varinf.dtype != type('Str') and             \
          varinf.dtype != Sval.type and varinf.dtype != Uval.type and                \
          varinf.dtype != S1val.type and type(var1) != S1val.type and                \
          type(var1) != Sval.type and type(var1) != Uval.type:
            print '  ' + varn + ':',varinf.dims
            found=0
            if varinf.Ndims == 1:
                for i0 in range(varinf.dims[0]):
                    if abs(varvals[i0]) > valthres or np.isnan(varvals[i0]):
                        print '  ' + fname + ': NaN value found on variable "' +     \
                          varn + '" at: ',i0,' value: ',varvals[i0]
                        break
            elif varinf.Ndims == 2:
                for i1 in range(varinf.dims[0]):
                    for i0 in range(varinf.dims[1]):
                        if abs(varvals[i1,i0]) > valthres or np.isnan(varvals[i1,i0]):
                            print '  ' + fname + ': NaN value found on variable "' + \
                              varn + '" at: ',i1,', ',i0,' value: ',varvals[i1,i0]
                            found=1
                            break
                    if found == 1: break 
            elif varinf.Ndims == 3:
                for i2 in range(varinf.dims[0]):
                    for i1 in range(varinf.dims[1]):
                        for i0 in range(varinf.dims[2]):
                            if abs(varvals[i2,i1,i0]) > valthres or                  \
                              np.isnan(varvals[i2,i1,i0]):
                                print '  ' + fname +                                 \
                                  ': NaN value found on variable "' + varn +         \
                                  '" at: ', i2,', ',i1,', ',i0,' value: ',           \
                                  varvals[i2,i1,i0]
                                found=1
                                break
                        if found == 1: break 
                    if found == 1: break 
            elif varinf.Ndims == 4:
                for i3 in range(varinf.dims[0]):
                    for i2 in range(varinf.dims[1]):
                        for i1 in range(varinf.dims[2]):
                            for i0 in range(varinf.dims[3]):
                                if abs(varvals[i3,i2,i1,i0]) > valthres or           \
                                  np.isnan(varvals[i3,i2,i1,i0]):
                                    print '  ' + fname +                             \
                                      ': NaN value found on variable "' + varn +     \
                                      '" at: ', i3,', ', i2,', ',i1,', ',i0,         \
                                      ' value: ',varvals[i3,i2,i1,i0]
                                    found=1
                                    break
                            if found == 1: break 
                        if found == 1: break 
                    if found == 1: break 
            elif varinf.Ndims == 5:
                for i4 in range(varinf.dims[0]):
                    for i3 in range(varinf.dims[1]):
                        for i2 in range(varinf.dims[2]):
                            for i1 in range(varinf.dims[3]):
                                for i0 in range(varinf.dims[4]):
                                    if abs(varvals[i4,i3,i2,i1,i0]) > valthres or    \
                                      np.isnan(varvals[i4,i3,i2,i1,i0]):
                                        print '  ' + fname +                         \
                                          ': NaN value found on variable "' + varn + \
                                          '" at: ', i4,', ', i3,', ', i2,', ',i1,    \
                                          ', ',i0,' value: ',varvals[i4,i3,i2,i1,i0]
                                        found=1
                                        break
                                if found == 1: break 
                            if found == 1: break 
                        if found == 1: break 
                    if found == 1: break 
            else:
                print errormsg
                print '  ' + fname + ' number of dimensions ',varinf.Ndims,          \
                  ' not ready!!'
                quit(-1)
            ivar = ivar + 1

    ncobj.close()

    return

##checkNaNs(10.e10, '/d4/lflmd/etudes/WRF_LMDZ/WaquaL/WRF/control/wrfout_d01_1979-12-01_00:00:00')
##checkNaNs(10.e10, '/d4/lflmd/etudes/FF/tests/em_quarter_ss/run/wrfout_d01_0001-01-01_00:00:00')

def checkAllValues(values, filen):
    """ Function to check for variables with along all their dimensions with the same value in a file
    values = value to check
    filen=name of the netCDF file to check
    """
    fname = "'checkAllValues'"

    valcheck = np.float(values)
    ncobj = NetCDFFile(filen,'r')
    S1val = np.dtype('a1') 
    Sval = np.dtype(str)
    Uval = np.dtype(unicode)

    ivar = 1
    print fname + ' checking with: ',valcheck,' in _______'
    for varn in ncobj.variables:
        varobj = ncobj.variables[varn]
        varinf = variable_inf(varobj)
        varvals = varobj[:]
        var1 = varvals.flatten()[0]

        if varinf.dtype != type('c') and varinf.dtype != type('Str') and             \
          varinf.dtype != Sval.type and varinf.dtype != Uval.type and                \
          varinf.dtype != S1val.type and type(var1) != S1val.type and                \
          type(var1) != Sval.type and type(var1) != Uval.type:
            print '  ' + varn + ':',varinf.dims
            if np.all(varvals == valcheck):
                print '  ' + fname + ': variable "' + varn +                         \
                  '" with all its values == ',valcheck

            ivar = ivar + 1

    ncobj.close()

    return

##checkAllValues(0., '/d4/lflmd/etudes/WRF_LMDZ/WaquaL/WRF/control/wrfout_d01_1979-12-01_00:00:00')
##checkAllValues(0., '/d4/lflmd/etudes/FF/tests/em_quarter_ss/run/wrfout_d01_0001-01-01_00:00:00')
##checkAllValues(0., '/home/lluis/etudes/WRF_LMDZ/tests/wrf_input/AR40.0/wrfout_d01_1979-01-01_00:00:00')

def DataSetSection(values, filen):
    """ Function to get a section (values along a dimension) of a given data-set
      values= [dimn],[beg],[end],[int]
        [dimn]: name of the dimension
        [beg],[end],[int]: beginning, end and interval along the dimension-axis
          [end] = -1, values until the end
          [beg] = -9, last value
      filen= netCDF with the data-set
      DataSetSection('time,3,15,1','test.nc')
    """
    fname = 'DataSetSection'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print DataSetSection.__doc__
        quit()

    dimn = values.split(',')[0]
    begv = np.int(values.split(',')[1])
    endv = np.int(values.split(',')[2])
    intv = np.int(values.split(',')[3])

    ofile=filen.split('.')[0] + '_' + dimn + '_B' + str(begv) + '-E' + str(endv) +   \
      '-I' + str(intv) + '.nc'

    nciobj = NetCDFFile(filen,'r')
    ncoobj = NetCDFFile(ofile,'w')

# Creating dimensions
## 

    dimsecslice = {}
    for dims in nciobj.dimensions:
        ibegv = begv
        iendv = endv
        iintv = intv
        objdim = nciobj.dimensions[dims]

        if objdim.isunlimited():
            dimsize = None

        if dims == dimn:
            if begv != -9:
                if begv > len(objdim):
                    print errormsg
                    print '  ' + fname + ': beginning value' ,begv,              \
                      'is larger than dimension (', len(objdim), ')!!!!'
                    quit(-1)
                if endv > len(objdim):
                    print errormsg
                    print '  ' + fname + ': endining value' ,endv,               \
                      'is larger than dimension (', len(objdim), ')!!!!'
                    quit(-1)

                if endv == -1: iendv = len(objdim)
                dimsize = (iendv - ibegv + 1)/iintv - 1
            else:
                dimsize == 0                       
                if begv == -9:
                    ibegv = len(objdim) - 1
                    iendv = len(objdim) - 1
                    iintv = 0
        else:
            if len(objdim) > 1:
                dimsize = len(objdim)
                ibegv = 0
                iendv = dimsize - 1
                iintv = 1
            else:
                dimsize = 0
                ibegv = 0
                iendv = 0
                iintv = 0

        if ibegv != iendv:
            dimsecslice[dims] = slice(ibegv,iendv,iintv)
        else:
            dimsecslice[dims] = ibegv

        if dimsize != 0:
            if begv != -9:
               dim = ncoobj.createDimension(dims, dimsize)
               print '    ' + fname + ': adding dimension: ' + dims + ' size:',dimsize
            else:
               if dims != dimn:
                   dim = ncoobj.createDimension(dims, dimsize)
                   print '    ' + fname + ': adding dimension: ' + dims + ' size:',dimsize

    ncoobj.sync()
# Creating variables
## 
    filedims = ncoobj.dimensions
    for varns in nciobj.variables:
        print '    ' + fname + ': adding variable "' + varns + '"...'
        varobj = nciobj.variables[varns]

        vardims = varobj.dimensions

        if not gen.searchInlist(list(vardims),dimn):
            # removing monotones
            varslice = []
            filevardims = []
            for dimname in varobj.dimensions:
                lendim = len(nciobj.dimensions[dimname])
                if lendim > 1:
                    varslice.append(slice(0, lendim))
                    filevardims.append(dimname)
                else:
                    varslice.append(0)

            varvals = varobj[tuple(varslice)]
        else:
            varslice = []
            filevardims = []
            for dimname in varobj.dimensions:
                if dimname == dimn:
                    varslice.append(dimsecslice[dimn])
                    if type(dimsecslice[dimn]) == type(slice(1)):
                        filevardims.append(dimname)
                else:
                    Ldim = len(nciobj.dimensions[dimname])
                    if Ldim > 1:
                        varslice.append(slice(0,Ldim))
                        filevardims.append(dimname)
                    else:
                        varslice.append(0)

            varvals = varobj[tuple(varslice)]

# Adding fill value attribute
##
        varattrs = varobj.ncattrs()
        if gen.searchInlist(varattrs, '_FillValue'):
            varfil = varobj._FillValue
        else:
            varfil = False
        vartype = varobj.dtype

        newvar = ncoobj.createVariable(varns, vartype, tuple(filevardims),           \
          fill_value=varfil)
        newvar[:] = varvals

        for attrs in varattrs:
            if not attrs == '_FillValue':
                attrv = varobj.getncattr(attrs)
                attr = set_attribute(newvar, attrs, attrv)

# Global attributes
## 
    for attrs in nciobj.ncattrs():
        attrv = nciobj.getncattr(attrs)
        attr = set_attribute(ncoobj, attrs, attrv)

    nciobj.close()

    ncoobj.sync()
    ncoobj.close()

    print '  ' + fname + ' succesfull creation of file "' + ofile + '" !!!'

    return

def DataSetSection_multidims(values, filen, varn):
    """ Function to get a section (values along multiple dimensions) of a given data-set
      values= [dimn1],[beg1],[end1],[int1]@[...[[dimnM],[begM],[endM],[intM]]]
        [dimni]: name of the dimension
        [begi],[endi],[inti]: beginning, end and interval along the dimension-axis
          [endi] = -1, last value
          NOTE: dimensions without values are taken allover their size
      filen= netCDF with the data-set
      varn= ',' list of variables, 'all' for all variables in data-set
      DataSetSection_multidims('Time,-1,-1,1@bottom_top,6,6,1','wrfout_d01_1979-12-01_00:00:00','all')
    """
    fname = 'DataSetSection_multidims'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print DataSetSection_multidims.__doc__
        quit()

    Ndims = len(values.split('@'))

    dimns = []
    ofiletile = ''
    begvs = np.zeros((Ndims), dtype=int)
    endvs = np.zeros((Ndims), dtype=int)
    intvs = np.zeros((Ndims), dtype=int)

    for idim in range(Ndims):
        val = values.split('@')[idim]
        dimns.append(val.split(',')[0])
        begvs[idim] = int(val.split(',')[1])
        endvs[idim] = int(val.split(',')[2])
        intvs[idim] = int(val.split(',')[3])
        ofiletile = ofiletile + '_' + dimns[idim] + '_B' + str(begvs[idim]) + '-E' + \
          str(endvs[idim]) + '-I' + str(intvs[idim])

    ofile = ofile=filen.split('.')[0] + ofiletile + '.nc'

    nciobj = NetCDFFile(filen,'r')
    ncoobj = NetCDFFile(ofile,'w')

# Creating dimensions
## 
    print '  ' + fname + ': adding dimensions...'
    newdimsizes = {}
    dimslices = {}
    varslice = []

    for dims in nciobj.dimensions:
        objdim = nciobj.dimensions[dims]
        dimsize = -1
        if not gen.searchInlist(dimns, dims):
            if objdim.isunlimited():
                dimsize = None
            else:
                dimsize = len(objdim)
            varslice.append(slice(0,len(objdim)))
        else:
            dimid = dimns.index(dims)
            if begvs[dimid] > len(objdim):
                print errormsg
                print '  ' + fname + ': beginning value' ,begvs[dimid],              \
                  'is larger than dimension (', len(objdim), ')!!!!'
                quit(-1)
            if endvs[dimid] > len(objdim):
                print errormsg
                print '  ' + fname + ': endining value' ,endvs[dimid],               \
                  'is larger than dimension (', len(objdim), ')!!!!'
                quit(-1)

            if begvs[dimid] != endvs[dimid]:
                if endvs[dimid] != -1:
                    dimsize = (endvs[dimid]-begvs[dimid]+1)/intvs[dimid]
                    dimslices[dims] = [begvs[dimid],endvs[dimid]+1,intvs[dimid]]
                else:
                    print 'here!'
                    dimsize = len(objdim)
                    dimslices[dims] = [begvs[dimid],len(objdim),1]
            else:
                dimsize = 1
                if begvs[dimid] == -1:
                    dimslices[dims] = [len(objdim)-1,len(objdim),1]
                else:
                    dimslices[dims] = [begvs[dimid],begvs[dimid]+1,1]

        newdimsizes[dims] = dimsize
        if dimsize != -1:
            if len(objdim) == 1 or dimsize != 1:
                print '    ' + fname + ': adding dimension: '+ dims +' size:',dimsize
                if objdim.isunlimited(): dimsize=None
                dim = ncoobj.createDimension(dims, dimsize)

    ncoobj.sync()
    print '  ' + fname + ': Slice according to dimension selection: ',dimslices
# Creating variables
## 
    print '  ' + fname + ': adding variables...'
    if varn == 'all':
        getvarns = nciobj.variables
    else:
        getvarns = varn.split(',')

    for varns in getvarns:
        print '    ' + fname + ': adding variable "' + varns + '"...'
        varobj = nciobj.variables[varns]

        varorigdims = varobj.dimensions
        vardims = []

# From: http://stackoverflow.com/questions/1388818/how-can-i-compare-two-lists-in-python-and-return-matches
        coinc = list(set(varorigdims) & set(dimns))
        if len(coinc) == 0:
            varvals = varobj[:]
            vardims = varorigdims
        else:
            varslice = []
            for dimname in varorigdims:
                if gen.searchInlist(dimns, dimname):
                    varslice.append(slice(dimslices[dimname][0],                     \
                      dimslices[dimname][1], dimslices[dimname][2]))
                    if newdimsizes[dimname] != 1: vardims.append(dimname)
                else:
                    Ldim = len(nciobj.dimensions[dimname])
                    varslice.append(slice(0,Ldim))
                    vardims.append(dimname)

            varvals = varobj[tuple(varslice)]

# Adding fill value attribute
##
#        print '  final variable dimensions:',vardims
        varattrs = varobj.ncattrs()
        if gen.searchInlist(varattrs, '_FillValue'):
            varfil = varobj._FillValue
        else:
            varfil = False
        vartype = varobj.dtype

        newvar = ncoobj.createVariable(varns, vartype, tuple(vardims),               \
          fill_value=varfil)
#        print 'newvar:',newvar.shape,'varvals:',varvals.shape
        newvar[:] = varvals

        for attrs in varattrs:
            if not attrs == '_FillValue':
                attrv = varobj.getncattr(attrs)
                attr = set_attribute(newvar, attrs, attrv)

# Global attributes
## 
    for attrs in nciobj.ncattrs():
        attrv = nciobj.getncattr(attrs)
        attr = set_attribute(ncoobj, attrs, attrv)

    slicevalS = ''
    for dimid in range(Ndims):
        dn = dimns[dimid]
        if dimslices[dn][2] is not None:
            slicevalS = slicevalS + dn + ' (' + str(dimslices[dn][0]) + ',' +        \
              str(dimslices[dn][1]) + ',' + str(dimslices[dn][2]) + '); '
        else:
            slicevalS = slicevalS + dn + ' (' + str(dimslices[dn][0]) + ',' +        \
              str(dimslices[dn][1]) + ',1); '

    attr = set_attribute(ncoobj, 'sliced_dimensions', slicevalS)

    nciobj.close()

    ncoobj.sync()
    ncoobj.close()

    print '  ' + fname + ' succesfull creation of file "' + ofile + '" !!!'

    return

#DataSetSection_multidims('Time,-1,-1,1@bottom_top,6,6,1','wrfout_d01_1979-12-01_00:00:00')
#DataSetSection_multidims('bottom_top,6,6,1@south_north,3,3,1@west_east,26,26,1','wrfout_d01_1979-12-01_00:00:00')

def sellonlatbox(values, ncfile, varn):
    """ Function to select a lotlan box from a data-set
      values= [lonName],[latName],[lonSW],[latSW],[lonNE],[latNE]
        [lonName]: name of the variable with the longitudes
        [latName]: name of the variable with the latitudes 
        [lonSW],[latSW]: longitude and latitude of the SW vertex of the box
        [lonNE],[latNE]: longitude and latitude of the NE vertex of the box
      ncfile= netCDF file
      varn= ',' list of names of the variables ('all', for all variables)
    """
    import numpy.ma as ma
    fname = 'sellonlatbox'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print sellonlatbox.__doc__
        quit()

    arguments = '[lonName],[latName],[lonSW],[latSW],[lonNE],[latNE]'
    gen.check_arguments(fname,values,arguments,',')

    lonn = values.split(',')[0]
    latn = values.split(',')[1]

    lonSW = np.float(values.split(',')[2])
    latSW = np.float(values.split(',')[3])
    lonNE = np.float(values.split(',')[4])
    latNE = np.float(values.split(',')[5])

    objfile = NetCDFFile(ncfile, 'r')
    if  not objfile.variables.has_key(lonn):
        print errormsg
        print '  ' + fname + ": file '" + ncfile + "' des not have longitude " +     \
          "variable '" + lonn + "' !!"
        quit(-1)
    if  not objfile.variables.has_key(latn):
        print errormsg
        print '  ' + fname + ": file '" + ncfile + "' des not have latitude " +      \
          "variable '" + lonn + "' !!"
        quit(-1)

    lonobj = objfile.variables[lonn]
    latobj = objfile.variables[latn]

    loninf = variable_inf(lonobj)
    latinf = variable_inf(latobj)

    lonv = lonobj[:]
    latv = latobj[:]

    if varn == 'all':
        varns = objfile.variables
        filevarn = varn
    elif varn.find(',') != -1:
        varns = varn.split(',')
        filevarn = varn.replace(',','-')
    else:
        varns = [varn]
        filevarn = varn

    ofile = 'sellonlatbox_' + filevarn + '.nc'

# Lon/lat box
    nalon = lonv.min()
    nalat = latv.min()
    xalon = lonv.max()
    xalat = latv.max()

    if lonSW < nalon:
        print errormsg
        print '  ' + fname + ': longitude SW corner:', lonSW,' too small!!'
        print '    min lon data:', nalon, 'increase SW corner longitude'
        quit(-1)
    if latSW < nalat:
        print errormsg
        print '  ' + fname + ': latitude SW corner:', latSW,' too small!!'
        print '    min lat data:', nalat, 'increase SW corner latitude'
        quit(-1)
    if lonNE > xalon:
        print errormsg
        print '  ' + fname + ': longitude NE corner:', lonNE,' too large!!'
        print '    max lon data:', xalon, 'decrease NE corner longitude'
        quit(-1)
    if latNE > xalat:
        print errormsg
        print '  ' + fname + ': latitude NE corner:', latNE,' too large!!'
        print '    max lat data:', xalat, 'decrease NE corner latitude'
        quit(-1)

    malon = ma.masked_outside(lonv,lonSW,lonNE)
    malat = ma.masked_outside(latv,latSW,latNE)

    if len(lonv.shape) == 1:
        dlonn = loninf.dimns[0]
        dlatn = latinf.dimns[0]
        dimx = lonv.shape[0]
        dimy = latv.shape[0]
        malonlat = malon.mask + malat.mask
        malonv = ma.array(lonv, mask=malonlat)
        malatv = ma.array(latv, mask=malonlat)
    elif len(lonv.shape) == 2:
        dlonn = loninf.dimns[1]
        dlatn = loninf.dimns[0]
        dimx = lonv.shape[1]
        dimy = lonv.shape[0]
        malonlat = malon.mask + malat.mask
        malonv = ma.array(lonv, mask=malonlat)
        malatv = ma.array(latv, mask=malonlat)
    elif len(lonv.shape) == 3:
        print warnmsg
        print '  ' + fname + ': assuming that lon/lat is constant to the first dimension!!'
        print '    shape lon:', lonv.shape, 'lat:', latv.shape
        dlonn = loninf.dimns[2]
        dlatn = loninf.dimns[1]
        dimx = lonv.shape[2]
        dimy = lonv.shape[1]
        malonlat = np.zeros((dimy,dimx), dtype=bool)
        malonlat = malon.mask + malat.mask
        malonv = ma.array(lonv, mask=malonlat)
        malatv = ma.array(latv, mask=malonlat)
    else:
        print errormsg
        print '  ' + fname + ': matrix shapes not ready!!'
        print '    shape lon:',lonv.shape,'lat:',latv.shape
        quit(-1)

# Size of the new domain
    nlon = malon.min()
    nlat = malat.min()
    xlon = malon.max()
    xlat = malat.max()

    print '  ' + fname + ': data box: SW', nlon, nlat,'NE:',xlon,xlat 

    ilon = dimx
    elon = 0
    ilat = dimy
    elat = 0
    if  len(lonv.shape) > 1:
        for j in range(dimy):
            for i in range(dimx):
                if malonlat[j,i] == False and i < ilon: 
                    ilon = i
                if malonlat[j,i] == False and i > elon: 
                    elon = i
                if malonlat[j,i] == False and j < ilat: 
                    ilat = j
                if malonlat[j,i] == False and j > elat: 
                    elat = j
    else:
        if dimx != dimy:
            for i in range(dimx):
                if malonlat[i] == False and i < ilon: 
                    ilon = i
                if malonlat[i] == False and i > elon: 
                    elon = i
            for j in range(dimy):
                if malonlat[j] == False and j < ilat: 
                    ilat = j
                if malonlat[j] == False and j > elat: 
                    elat = i
        else:
            for i in range(dimx):
                if malonlat[i] == False and i < ilon: 
                    ilon = i
                    ilat = i
                if malonlat[i] == False and i > elon: 
                    elon = i
                    elat = i

    print 'ilon elon ilat elat:', ilon, elon, ilat, elat
#    newdimx = elon - ilon + 1
#    newdimy = elat - ilat + 1
    newdimx = dimx - np.sum(malonv.mask)
    newdimy = dimy - np.sum(malatv.mask)

    if len(malon.shape) == 1:
        datalonSW = lonv[ilon]
        datalatSW = latv[ilat]
        datalonNE = lonv[elon]
        datalatNE = latv[elat]
    elif len(malon.shape) == 2:
        datalonSW = lonv[ilat,ilon]
        datalatSW = latv[ilat,ilon]
        datalonNE = lonv[elat,elon]
        datalatNE = latv[elat,elon]
    elif len(malon.shape) == 3:
        datalonSW = lonv[0,ilat,ilon]
        datalatSW = latv[0,ilat,ilon]
        datalonNE = lonv[0,elat,elon]
        datalatNE = latv[0,elat,elon]
    
    print '  ' + fname + ': final SW:', datalonSW, ',', datalatSW, 'NE:', datalonNE, \
      ',', datalatNE
    print '  ' + fname + ': new lon size:', ilon, ',', elon, 'new dimx:', newdimx
    print '  ' + fname + ': new lat size:', ilat, ',', elat, 'new dimy:', newdimy

    newncobj = NetCDFFile(ofile, 'w')

# Creation of lon,lat related dims
    if dlonn != dlatn:
        newdim = newncobj.createDimension(dlonn, newdimx)
        newdim = newncobj.createDimension(dlatn, newdimy)
    else:
# Only in 1D data!!
        newdim = newncobj.createDimension(dlonn, newdimx)

# Adding lonn/latn to the output file
    if not gen.searchInlist(varns,lonn): varns.append(lonn)
    if not gen.searchInlist(varns,latn): varns.append(latn)

    for vn in varns:
        print 'Adding "' + vn + "' ..."
        if  not objfile.variables.has_key(lonn):
            print errormsg
            print '  ' + fname + ": file '" + ncfile + "' des not have variable '" + \
              vn + "' !!"
            quit(-1)
        if not gen.searchInlist(objfile.variables, vn):
            print errormsg
            print '  ' + fname + ': variable name "' + vn + '" is not in file "' +   \
              ncfile + '" !!!!!'
            quit(-1)

        varobj = objfile.variables[vn]
        varinf = variable_inf(varobj)

# Adding variable dimensions
        varslice = []
        for dimn in varinf.dimns:
            if not gen.searchInlist(newncobj.dimensions, dimn):
                newncobj.createDimension(dimn, len(objfile.dimensions[dimn]))
# Very special case when we have for example a list of stations (which is the case!)
            if dimn == dlonn and dimx != dimy: 
                varslice.append(slice(ilon,elon+1))
            elif dimn == dlatn and dimx != dimy: 
                varslice.append(slice(ilat,elat+1))
            else:
                varslice.append(slice(0,len(objfile.dimensions[dimn])))

        if varinf.FillValue is not None:
            newvar = newncobj.createVariable(vn, nctype(varinf.dtype), varinf.dimns)
        else:
            newvar = newncobj.createVariable(vn, nctype(varinf.dtype), varinf.dimns, \
              fill_value = varinf.FillValue)

        if dimx != dimy:
            newvar[:] = varobj[tuple(varslice)]
        else:
# Very special case when we have for example a list of stations (which is the case!)
            print '  ' + fname + ': woow we are in a stations-list like of file...'
            inpos0 = 0
            for i in range(newdimx):
                inpos = gen.index_vec(malonlat[inpos0:dimx+1], False)
                inpos = inpos + inpos0
                inpos0 = inpos + 1
                varslice = []
                newvarslice = []
                for dimn in varinf.dimns:
                    if not gen.searchInlist(newncobj.dimensions, dimn):
                        newncobj.createDimension(dimn, len(objfile.dimensions[dimn]))
# Very special case when we have for example a list of stations (which is the case!)
                    if dimn == dlonn: 
                        varslice.append(inpos)
                        newvarslice.append(i)
                    else:
                        varslice.append(slice(0,len(objfile.dimensions[dimn])))
                        newvarslice.append(slice(0,len(objfile.dimensions[dimn])))
                newvar[tuple(newvarslice)] = varobj[tuple(varslice)]

        for atrn in varinf.attributes:
            if atrn != '_FillValue':
                attrv = varobj.getncattr(atrn)
                newattr = set_attributek(newvar, atrn, attrv, type(attrv))

        newncobj.sync()

    for atrn in objfile.ncattrs():
        attrv = objfile.getncattr(atrn)
        newattr = set_attributek(newncobj, atrn, attrv, type(attrv))

# global attributes
    newncobj.setncattr('author', 'L. Fita')
    newattr = set_attributek(newncobj, 'institution', unicode('Laboratoire de M' +       \
      unichr(233) + 't' + unichr(233) + 'orologie Dynamique'), 'U')
    newncobj.setncattr('university', 'Pierre Marie Curie - Jussieu')
    newncobj.setncattr('center', 'Centre National de Recherches Scientifiques')
    newncobj.setncattr('city', 'Paris')
    newncobj.setncattr('country', 'France')
    newncobj.setncattr('script', 'nc_var_tools.py')
    newncobj.setncattr('function', 'sellonlatbox')
    newncobj.setncattr('version', '1.0')
    newncobj.setncattr('original_file', ncfile)
    newnattr = set_attributek(newncobj, 'lonSW', lonSW, 'R')
    newnattr = set_attributek(newncobj, 'latSW', latSW, 'R')
    newnattr = set_attributek(newncobj, 'lonNE', lonNE, 'R')
    newnattr = set_attributek(newncobj, 'latNE', latNE, 'R')
    newnattr = set_attributek(newncobj, 'data_lonSW', datalonSW, 'R')
    newnattr = set_attributek(newncobj, 'data_latSW', datalatSW, 'R')
    newnattr = set_attributek(newncobj, 'data_lonNE', datalonNE, 'R')
    newnattr = set_attributek(newncobj, 'data_latNE', datalatNE, 'R')
    newnattr = set_attributek(newncobj, 'data_pt_lonSW', ilon, 'I')
    newnattr = set_attributek(newncobj, 'data_pt_latSW', ilat, 'I')
    newnattr = set_attributek(newncobj, 'data_pt_lonNE', elon, 'I')
    newnattr = set_attributek(newncobj, 'data_pt_latNE', elat, 'I')

    objfile.close()

    newncobj.sync()
    newncobj.close()

    print '  ' + fname + ': successful creation of file "' + ofile + '" !!!'

    return

def sellonlatboxold(values, ncfile, varn):
    """ Function to select a lotlan box from a data-set
      values= [lonName],[latName],[lonSW],[latSW],[lonNE],[latNE]
        [lonName]: name of the variable with the longitudes
        [latName]: name of the variable with the latitudes 
        [lonSW],[latSW]: longitude and latitude of the SW vertex of the box
        [lonNE],[latNE]: longitude and latitude of the NE vertex of the box
      ncfile= netCDF file
      varn= ',' list of names of the variables ('all', for all variables)
    """
    fname = 'sellonlatboxold'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print sellonlatbox.__doc__
        quit()

    ofile = 'sellonlatbox_' + varn + '.nc'

    lonn = values.split(',')[0]
    latn = values.split(',')[1]

    lonSW = np.float(values.split(',')[2])
    latSW = np.float(values.split(',')[3])
    lonNE = np.float(values.split(',')[4])
    latNE = np.float(values.split(',')[5])

    objfile = NetCDFFile(ncfile, 'r')
    lonobj = objfile.variables[lonn]
    latobj = objfile.variables[latn]

    lonv = lonobj[:]
    latv = latobj[:]

    if varn == 'all':
        varns = objfile.variables
    elif varn.find(',') != -1:
        varns = varn.split(',')
    else:
        varns = [varn]

    for vn in varns:
        if not searchInlist(objfile.variables, vn):
            print errormsg
            print '  ' + fname + ': variable name "' + vn + '" is not in file "' +   \
              ncfile + '" !!!!!'
            quit(-1)

        varobj = objfile.variables[vn]

        Ndimslon = len(lonobj.shape)
        Ndimslat = len(latobj.shape)
        Ndimsvar = len(varobj.shape)

# Looking for coincidence of dimensions
        samedim = []
        for idv in range(Ndimsvar):
            for idl in range(Ndimslon):
                if varobj.dimensions[idv] == lonobj.dimensions[idl]:
                    if not searchInlist(samedim,varobj.dimensions[idv]): 
                        samedim.append(varobj.dimensions[idv])
                        break
            for idl in range(Ndimslat):
                if varobj.dimensions[idv] == latobj.dimensions[idl]:
                    if not searchInlist(samedim,varobj.dimensions[idv]): 
                        samedim.append(varobj.dimensions[idv])
                        break

        Ndimshare = len(samedim)
        print 'variable and lon/lat matrices share ', Ndimshare,' dimensions: ',samedim

        samedimslonlat = True
        for idL in range(Ndimslon):
            for idl in range(Ndimslat):
                if lonobj.dimensions[idl] != latobj.dimensions[idl]:
                    samedimslonlat = False
                    break

            if not samedimslonlat: break
    
# Creation of the lon/lat matrices to search
        if Ndimshare == 1:
            lonmat = lonobj[:]
            latmat = latobj[:]
        elif Ndimshare == 2:
            if samedimslonlat:
                lonmat = lonobj[:]
                latmat = latobj[:]
            else:
                if Ndimslon != 1 and Ndimslat != 1:
                    print errormsg
                    print '  ' + fname + ': I do not know how to keep going!'
                    print '    lon ', Ndimslon,' and lat ',Ndimslat,                 \
                      ' matrices do not share the same dimensions, and do not ' +    \
                      'have shape 1'
                    quit(-1)
                else:
                    lonmat = np.zeros((latobj.shape[0], lonobj.shape[0]), dtype=np.float)
                    latmat = np.zeros((latobj.shape[0], lonobj.shape[0]), dtype=np.float)

                    for i in range(lonobj.shape[0]):
                        latmat[:,i] = latobj[:]
                    for j in range(latobj.shape[0]):
                        lonmat[j,:] = lonobj[:]
        elif Ndimshare == 3:
            if samedimslonlat:
                lonmat = lonobj[0,:,:]
                latmat = latobj[0,:,:]
        else:
            print errormsg
            print '  ' + fname + ': dimension sharing of lon/lat not ready!'
            quit(-1)

# Searching for inside points
        iind = 0
        if Ndimshare == 1:
            inside = {}
            for iL in range(lonobj.shape[0]):
                if lonobj[iL] >= lonSW and lonobj[iL] <= lonNE and latobj[iL] >= latSW\
                  and latobj[iL] <= latNE:
                    inside[iind] = iL
                    iind = iind + 1
        elif Ndimshare == 2:
            newidx = []
            newidy = []
            if (len(lonobj.shape) == 3):
                inside = np.zeros((lonobj.shape[1], lonobj.shape[2]), dtype=bool)
            else:
                inside = np.zeros((lonobj.shape), dtype=bool)

            for iL in range(lonobj.shape[1]):
                for il in range(lonobj.shape[0]):
                    if lonobj[il,iL] >= lonSW and lonobj[il,iL] <= lonNE and         \
                      latobj[il,iL] >= latSW and latobj[il,iL] <= latNE:
                        if not searchInlist(newidx, iL): newidx.append(iL)
                        if not searchInlist(newidy, il): newidy.append(il)
                        inside[il, iL] = True
                        iind = iind + 1
        elif Ndimshare == 3:
            newidx = []
            newidy = []
            inside = np.zeros((lonobj.shape[1], lonobj.shape[2]), dtype=bool)

            for iL in range(lonobj.shape[2]):
                for il in range(lonobj.shape[1]):
                    if lonobj[0,il,iL] >= lonSW and lonobj[0,il,iL] <= lonNE and     \
                      latobj[0,il,iL] >= latSW and latobj[0,il,iL] <= latNE:
                        if not searchInlist(newidx, iL): newidx.append(iL)
                        if not searchInlist(newidy, il): newidy.append(il)
                        inside[il, iL] = True
                        iind = iind + 1

        Ninpts = len(inside)
        newdx = len(newidx)
        newdy = len(newidy)

        print '  ' + fname + ': ', Ninpts, 'pts found in the box:', lonSW, ',',      \
          latSW, 'x', lonNE, ',', latNE

# Creation of cropped matrices
        inlon = np.zeros((Ninpts), dtype=np.float)
        inlat = np.zeros((Ninpts), dtype=np.float)
        invar = np.zeros((varobj.shape[0],Ninpts), dtype=np.float)

# Creation of the netCDF file
##
        if vn in varns[0]:
            objofile = NetCDFFile(ofile, 'w')

            if Ndimshare == 1:

# Dimensions
                newdim = objofile.createDimension('boxpt', Ninpts)
                newdim = objofile.createDimension('time', None)

# var dimensions
                newvar = objofile.createVariable('lon', 'f8', ('boxpt'))
                newattr = basicvardef(newvar, 'lon', 'longitude', 'degrees west_east')
                newvar[:] = lonobj[inside[iin]]

                newvar = objofile.createVariable('lat', 'f8', ('boxpt'))
                newattr = basicvardef(newvar, 'lat', 'latitude', 'degrees north_south')
                newvar[:] = latobj[inside[iin]]

                newvar = objofile.createVariable('time', 'f8', ('time'))
                if objfile.variables.has_key('time'):
                    otime = objfile.variables['time']
                    timevals = otime[:]
                    if searchInlist(otime.ncattrs(),'units'):
                        tunits = otime.getncattr['units']
                    else:
                        tunits = 'unkown'
                else:
                    timevals = np.arange(varobj.shape[0])
                    tunits = 'unkown'

                newattr = basicvardef(newvar, 'time', 'time', tunits)

                newvar[:] = timevals

# variable
                newvar = objofile.createVariable(varn, 'f4', ('time', 'boxpt'))
                newvar[:] = varobj[invar]
            else:

# Dimensions
                newdim = objofile.createDimension('x', newdx)
                newdim = objofile.createDimension('y', newdy)
                newdim = objofile.createDimension('time', None)

# var dimensions
                newvar = objofile.createVariable('lon', 'f8', ('y', 'x'))
                if Ndimshare == 2:
                  Vals = lonobj[:]
                else:
                  Vals = lonobj[0,:,:]

                for it in range(varobj.shape[0]):
                    newvar[:] = Vals[inside].reshape(newdy,newdx)

                newattr = basicvardef(newvar, 'lon', 'longitude', 'degrees west_east')

                newvar = objofile.createVariable('lat', 'f8', ('y', 'x'))
                newattr = basicvardef(newvar, 'lat', 'latitude', 'degrees north_south')
                if Ndimshare == 2:
                  Vals = latobj[:]
                else:
                  Vals = latobj[0,:,:]


                for it in range(varobj.shape[0]):
                    newvar[:] = Vals[inside].reshape(newdy,newdx)

                newvar = objofile.createVariable('time', 'f8', ('time'))
                if objfile.variables.has_key('time'):
                    otime = objfile.variables['time']
                    timevals = otime[:]
                    if searchInlist(otime.ncattrs(),'units'):
                        tunits = otime.getncattr['units']
                    else:
                        tunits = 'unkown'
                else:
                    timevals = np.arange(varobj.shape[0])
                    tunits = 'unkown'

                newattr = basicvardef(newvar, 'time', 'time', tunits)

                newvar[:] = timevals

# variable
        newvar = objofile.createVariable(varn, 'f4', ('time', 'y', 'x'))
        for it in range(varobj.shape[0]):
            valsvar = varobj[it,:,:]
            newvar[it,:,:] = valsvar[inside]

        if searchInlist(varobj.ncattrs(),'standard_name'):
            vsname = varobj.getncattr('standard_name')
        else:
            vsname = varn
        if searchInlist(varobj.ncattrs(),'long_name'):
            vlname = varobj.getncattr('long_name')
        else:
            vlname = varn
        if searchInlist(varobj.ncattrs(),'units'):
            vunits = varobj.getncattr('units')
        else:
            vunits = 'unkown'

        newattr = basicvardef(newvar, vsname, vlname, vunits)

# global attributes
    objofile.setncattr('author', 'L. Fita')
    objofile.setncattr('institution', 'Laboratire de Meteorologie Dynamique')
    objofile.setncattr('university', 'Pierre Marie Curie - Jussieu')
    objofile.setncattr('center', 'Centre National de Recherches Scientifiques')
    objofile.setncattr('city', 'Paris')
    objofile.setncattr('country', 'France')
    objofile.setncattr('script', 'nc_var_tools.py')
    objofile.setncattr('function', 'sellonlatbox')
    objofile.setncattr('version', '1.0')

    objfile.close()

    objofile.sync()
    objofile.close()

    print '  ' + fname + ': successful creation of file "' + ofile + '" !!!'

    return

#sellonlatbox('h', '/san0/lflmd/DATA/SAFRAN/ForcPRCP_france_SAFRAN_8Km_1hour_1996080100_1997073123_V1_01.nc', 'RR')
#sellonlatbox('lon,lat,2.,42.5,5.,45.', '/home/lluis/DATA/SAFRAN/safran_RR_1996.nc', 'RR')
#sellonlatbox('lon,lat,2.,42.5,5.,45.', '/san0/lflmd/DATA/SAFRAN/ForcPRCP_france_SAFRAN_8Km_1hour_1996080100_1997073123_V1_01.nc', 'product')
#sellonlatbox('XLONG,XLAT,2.,42.5,5.,45.', '/san0/lflmd/etudes/WRF_LMDZ/WL_HyMeX/Cevennes96/control/wrfout/wrfout_d01_1996-09-17_00:00:00', 'RAINC')

def compute_deaccum(values, ncfile, varname):
    """ Function to compute deaccum: deaccumulation of a variable (VAR[t+1]-VAR[t])
      values= [timedimname] name of the time dimension
      ncfile= netCDF file to use
      varname= variable to deaccumulate
    """
    fname='compute_deaccum'

    ofile = 'deaccumulated_' + varname + '.nc'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print compute_deacccum.__doc__
        quit()

    objnc = NetCDFFile(ncfile, 'r')

    if not objnc.variables.has_key(varname):
        print errormsg
        print '  ' + fname + ': netCDF file "' + ncfile +                            \
          '" does not have variable "' + varname + '" !!!!'
        quit(-1)

    var1obj = objnc.variables[varname]
    vardims = var1obj.dimensions
    Ndimvar = len(vardims)

    vdim = []
    deacdims = []

# Searcing for time dimension
    for idd in range(Ndimvar):
        vdim.append(slice(0,var1obj.shape[idd]))
        deacdims.append(var1obj.shape[idd])
        if vardims[idd] == values:
            dimtid = idd

    dimt = var1obj.shape[dimtid]

    print 'Number of time-steps: ',dimt,' id dimt: ',dimtid
    deacdims[dimtid] = dimt

    varvals = np.zeros(tuple(deacdims), dtype=np.float)

# Slicing for the deaccumulation

    for it in range(dimt):
        vals1 = list(vdim)
        vals2 = list(vdim)

        vals1[dimtid] = it
        if it > 0:
            vals2[dimtid] = it - 1
        else:
            vals2[dimtid] = it

        var1 = var1obj[tuple(vals1)]
        var2 = var1obj[tuple(vals2)]

        varvals[tuple(vals1)] = var1-var2

# Creation of the new file
    objofile = NetCDFFile(ofile, 'w')

# Dimensions
    fdims = objnc.dimensions
    for dimn in fdims:
        dimobj = objnc.dimensions[dimn]
        if dimobj.isunlimited():
            print '      ' + fname + ': Unlimited dimension '
            dimsize = None
        else:
            dimsize = len(dimobj)

        newdim = objofile.createDimension(dimn, dimsize)


# Variables
    fvars = objnc.variables
    for varn in fvars:
        varobj = objnc.variables[varn]
        if varn == varname:
            newvarn = 'deaccum' + varn
        else:
            newvarn = varn

        newvar = objofile.createVariable(newvarn, varobj.dtype, varobj.dimensions)
        for attrn in  varobj.ncattrs():
            attrval = varobj.getncattr(attrn)
            newattr = newvar.setncattr(attrn, attrval)

        if varn == varname:
            newvar[:] = varvals
        else:
            newvar[:] = varobj[:]

# Global attributes
    for attrn in objnc.ncattrs():
        attrval = objnc.getncattr(attrn)
        newattr = objofile.setncattr(attrn, attrval)
    
    objnc.close()

    objofile.sync()
    objofile.close()

    print '  ' + fname + ' success written of "' + ofile + '" !!!!!'

    return 

#compute_deaccum('time', 'control/sellonlatbox_PRECIP_dayaccum.nc', 'PRECIP')

def compute_opersvarsfiles(values, varname):
    """ Function to compute opersvarfiles: operation of variables from different files
      (OPER1.FILE1_VAR1 OPER2.FILE2_VAR2), operations are going to be secuentially 
      made
        values= [dimvons]@[operfilevars]
          [dimnvons]: [dimo1]|[dimo2]|[...|[dimoN]] '|' seaprated list of names with the 
            variables which contain the values of the dimensions of the compute variable
          operfilevars: [oper1]|[file1]|[varN],[...,[operK]|[fileM]|[varN]] ',' separated list of 
             triplets of [operation], [file], [variable name to use]
           * [oper]: operations: add,sub,mul,div,pot
        varname= name to the final variable
    """
#    import numpy.ma as ma
    fname='compute_opersvarsfiles'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print compute_opersvarsfiles.__doc__
        quit()

    dimovars = values.split('@')[0].split('|')
    filevars = values.split('@')[1].split(',')

    ofile = 'opersvarsfiles_' + varname + '.nc'

    Nfilevars = len(filevars)

    operation = 'operation: '
    newunits = '-'
    opervars = []

    for ifv in range(Nfilevars):
        opern = filevars[ifv].split('|')[0]
        filen = filevars[ifv].split('|')[1]
        varn = filevars[ifv].split('|')[2]
        opervars.append(varn)

        if not os.path.isfile(filen):
            print errormsg
            print '  ' + fname + ' file: "' + filen + '" does not exist !!'
            quit(-1)

        objnc = NetCDFFile(filen, 'r')

        if not objnc.variables.has_key(varn):
            print errormsg
            print '  ' + fname + ': netCDF file "' + filen +                         \
              '" does not have variable "' + varn + '" !!!!'
            quit(-1)

        varobj = objnc.variables[varn]
        varvals = varobj[:]

# Creation of the operated variable
        if ifv == 0:
            vardims = varobj.dimensions
            vartype = varobj.dtype

            if opern == 'add' or opern == 'sub':
                newvarv = np.zeros(tuple(varobj.shape), dtype=np.float)
            elif opern == 'mul' or opern == 'div' or opern == 'pot':
                newvarv = np.ones(tuple(varobj.shape), dtype=np.float)
            else:
                print errormsg
                print '  ' + fname + ': operation "' + opern + '" is not ready !!!!'
                quit(-1)

        if gen.searchInlist(varobj.ncattrs(), '_FillValue'):
            NOvalue = varobj.getncattr('_FillValue')
            print warnmsg
            print '    ' + fname + ': variable with a missing value:',NOvalue

        if opern == 'add':
            if gen.searchInlist(varobj.ncattrs(), '_FillValue'):
                prevals = varvals.filled(0.)
                newvarv = newvarv + prevals
            else:
                newvarv = newvarv + varvals
            operation = operation + ' +' + varn
            newunits = gen.variables_values(varname)[5]
        elif opern == 'sub':
            if gen.searchInlist(varobj.ncattrs(), '_FillValue'):
                prevals = varvals.filled(0.)
                newvarv = newvarv - prevals
            else:
                newvarv = newvarv - varvals
            operation = operation + ' -' + varn
            newunits = gen.variables_values(varname)[5]
        elif opern == 'mul':
            if gen.searchInlist(varobj.ncattrs(), '_FillValue'):
                prevals = varvals.filled(1.)
                newvarv = newvarv * prevals
            else:
                newvarv = newvarv * varvals
            operation = operation + ' *' + varn
            newunits = gen.variables_values(varname)[5]
        elif opern == 'div':
            if gen.searchInlist(varobj.ncattrs(), '_FillValue'):
                prevals = varvals.filled(1.)
                newvarv = newvarv / prevals
            else:
                newvarv = newvarv / varvals
            operation = operation + ' /' + varn
            newunits = gen.variables_values(varname)[5]
        elif opern == 'pot':
            if gen.searchInlist(varobj.ncattrs(), '_FillValue'):
                prevals = varvals.filled(1.)
                newvarv = newvarv ** prevals
            else:
                newvarv = newvarv ** varvals
            operation = operation + ' **' + varn
            newunits = gen.variables_values(varname)[5]

# Creation of the new file
    objofile = NetCDFFile(ofile, 'w')

# Dimensions
    for dimn in vardims:
        dimobj = objnc.dimensions[dimn]
        if dimobj.isunlimited():
            print '      ' + fname + ': Unlimited dimension '
            dimsize = None
        else:
            dimsize = len(dimobj)

        newdim = objofile.createDimension(dimn, dimsize)

# Variables for dimensions
    for varn in dimovars:
        varobj = objnc.variables[varn]
        newvar = objofile.createVariable(varn, varobj.dtype, varobj.dimensions)
        for attrn in  varobj.ncattrs():
            attrval = varobj.getncattr(attrn)
            newattr = newvar.setncattr(attrn, attrval)
        newvar[:] = varobj[:]

    newvar = objofile.createVariable(varname, vartype, vardims)
    newvar[:] = newvarv
    newattr = basicvardef(newvar, varname, operation, newunits)

# Global attributes
    for attrn in objnc.ncattrs():
        attrval = objnc.getncattr(attrn)
        newattr = objofile.setncattr(attrn, attrval)
    
    objnc.close()

    objofile.sync()
    objofile.close()

    print '  ' + fname + ' success written of "' + ofile + '" !!!!!'

    return 

#compute_opersvarsfiles('add|control/sellonlatbox_RAINC.nc|RAINC,add|control/sellonlatbox_RAINNC.nc|RAINNC', 'PRECIP')

def compute_opervartimes(values, ncfile, varname):
    """ Function to compute opervartimes: operation of variable for a given sub-set of time-steps
      (OPER1.VAR[IT,ET]), operations are going to be secuentially made
        values= [oper]|[timen]|[intT]
          dimension
          [oper]: operations: add,sub,mul,div,pot
          [timen]: name of the dimension time
          [intT]: number time-steps to accumulate
        ncfile= netCDF file to use
        varname= variable to use
    """
    fname='compute_opervartimes'

    ofile = 'opervartimes_' + varname + '.nc'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print opervartimes.__doc__
        quit()

    if not os.path.isfile(ncfile):
        print errormsg
        print '  ' + fname + ' file: "' + ncfile + '" does not exist !!'
        quit(-1)

    objnc = NetCDFFile(ncfile, 'r')

    if not objnc.variables.has_key(varname):
        print errormsg
        print '  ' + fname + ': netCDF file "' + ncfile +                            \
          '" does not have variable "' + varname + '" !!!!'
        quit(-1)

    opern = values.split('|')[0]
    timen = values.split('|')[1]
    intT = int(values.split('|')[2])

    varobj = objnc.variables[varname]
    vardims = varobj.dimensions
    vartype = varobj.dtype
    Ndims = len(vardims)
    
    newdimns = vardims
    newdims = np.zeros((Ndims), dtype=int)
    newslice = []
    newunits = '-'
    
    idim = 0
    for dimn in vardims:
        if dimn == timen:
            dimtid = idim
            newslice.append(0)
            origdimt = varobj.shape[dimtid]
            newdims[idim] = len(np.arange(origdimt)[intT/2::intT])
        else:
            newdims[idim] = varobj.shape[idim]
            newslice.append(slice(0,varobj.shape[idim]))

        idim = idim + 1
    
    print 'dimtid: ',dimtid

    if opern == 'add' or opern == 'sub':
        newvarv = np.zeros(tuple(newdims), dtype=np.float)
    elif opern == 'mul' or opern == 'div' or opern == 'pot':
        newvarv = np.ones(tuple(newdims), dtype=np.float)
    else:
        print errormsg
        print '  ' + fname + ': operation "' + opern + '" is not ready !!!!'
        quit(-1)

# Creation of the accumulated operated variable
    idint = 0
    itt = 0
    nint = 0

    for it in range(1,origdimt):

        tslice = list(newslice)
        tslice[dimtid] = it
        tnewvar = list(newslice)
        tnewvar[dimtid] = nint

        if opern == 'add':
            newvarv[tuple(tnewvar)] = newvarv[tuple(tnewvar)] + varobj[tuple(tslice)]
            if searchInlist(varobj.ncattrs(), 'units') and newunits != '-':
                newunits = varobj.getncattr('units')
        elif opern == 'sub':
            newvarv[tuple(tnewvar)] = newvarv[tuple(tnewvar)] - varobj[tuple(tslice)]
            if searchInlist(varobj.ncattrs(), 'units') and newunits != '-':
                newunits = varobj.getncattr('units')
        elif opern == 'mul':
            newvarv[tuple(tnewvar)] = newvarv[tuple(tnewvar)] * varobj[tuple(tslice)]
        elif opern == 'div':
            newvarv[tuple(tnewvar)] = newvarv[tuple(tnewvar)] / varobj[tuple(tslice)]
        elif opern == 'pot':
            newvarv[tuple(tnewvar)] = newvarv[tuple(tnewvar)] **varobj[tuple(tslice)]
            
        it = it + 1
        itt = itt + 1
        if itt == intT:
            nint = nint + 1
            itt = 0

# Creation of the new file
    objofile = NetCDFFile(ofile, 'w')

# Dimensions
    for dimn in newdimns:

        dimobj = objnc.dimensions[dimn]
        if dimobj.isunlimited():
            print '      ' + fname + ': Unlimited dimension '
            dimsize = None
        else:
            dimsize = len(dimobj)
            if dimn == timen:
                if np.mod(varobj.shape[dimtid],intT) != 0:
                    dimsize = varobj.shape[dimtid]/intT + 1

        newdim = objofile.createDimension(dimn, dimsize)

    newdim = objofile.createDimension('bnds', 2)

# Variables
    fvars = objnc.variables
    for varn in fvars:
        if varn != varname:
            varobj = objnc.variables[varn]
            if varn != timen:    
                if not searchInlist(varobj.dimensions,timen):
                    newvar = objofile.createVariable(varn, varobj.dtype,             \
                      varobj.dimensions)
                    for attrn in  varobj.ncattrs():
                        attrval = varobj.getncattr(attrn)
                        newattr = newvar.setncattr(attrn, attrval)
                    newvar[:] = varobj[:]
            else:
                    newvar = objofile.createVariable(varn, varobj.dtype, ('time'))
                    basicvardef(newvar, 'time', 'time steps','-')
                    times = np.arange(origdimt)[intT/2::intT]
                    newvar[:] = times
                    newdimt = newvar.shape[0]
                    newattr = newvar.setncattr('bounds','time_bnds')

    newvar = objofile.createVariable('time_bnds', 'i4', ('time', 'bnds'))
    basicvardef(newvar, 'time_bnds', 'time steps bnds of accumulation','-')
    for it in range(newdimt):
        newvar[it,0] = (it - 1)*intT
        newvar[it,1] = (it)*intT-1

    newvar = objofile.createVariable('ac' + varname, vartype, vardims)
    newvar[:] = newvarv
    newattr = basicvardef(newvar, 'ac' + varname, 'accumulated ' + opern +           \
      ' values' , newunits)

# Global attributes
    for attrn in objnc.ncattrs():
        attrval = objnc.getncattr(attrn)
        newattr = objofile.setncattr(attrn, attrval)
    
    objnc.close()

    objofile.sync()
    objofile.close()

    print '  ' + fname + ' success written of "' + ofile + '" !!!!!'

    return 

#compute_opervartimes('add|time|24', 'obs/PRCP.nc', 'product')
#

def compute_opervaralltime(values, ncfile, varname):
    """ Function to compute opervaralltime: operation of variable successible allover the time-steps
      (OPER1.VAR), operations are going to be secuentially made
        values= [oper]|[timen]
          dimension
          [oper]: operations: add,sub,mul,div,pot
          [timen]: name of the dimension time
        ncfile= netCDF file to use
        varname= variable to use
    """
    fname='compute_opervarlltime'

    ofile = 'opervaralltime_' + varname + '.nc'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print compute_opervaralltime.__doc__
        quit()

    if not os.path.isfile(ncfile):
        print errormsg
        print '  ' + fname + ' file: "' + ncfile + '" does not exist !!'
        quit(-1)

    objnc = NetCDFFile(ncfile, 'r')

    if not objnc.variables.has_key(varname):
        print errormsg
        print '  ' + fname + ': netCDF file "' + ncfile +                            \
          '" does not have variable "' + varname + '" !!!!'
        quit(-1)

    opern = values.split('|')[0]
    timen = values.split('|')[1]

    varobj = objnc.variables[varname]
    vardims = varobj.dimensions
    vartype = varobj.dtype
    Ndims = len(vardims)
    
    newdimns = vardims
    newdims = np.zeros((Ndims), dtype=int)
    newslice = []
    prevslice = []
    newunits = '-'
    
    idim = 0
    for dimn in vardims:
        if dimn == timen:
            dimtid = idim
            newslice.append(0)
            origdimt = varobj.shape[dimtid]
            newdims[idim] = origdimt
        else:
            newdims[idim] = varobj.shape[idim]
            newslice.append(slice(0,varobj.shape[idim]))

        idim = idim + 1
    
    print 'dimtid: ',dimtid

    if opern == 'add' or opern == 'sub':
        newvarv = np.zeros(tuple(newdims), dtype=np.float)
    elif opern == 'mul' or opern == 'div' or opern == 'pot':
        newvarv = np.ones(tuple(newdims), dtype=np.float)
    else:
        print errormsg
        print '  ' + fname + ': operation "' + opern + '" is not ready !!!!'
        quit(-1)

# Creation of the accumulated operated variable
    idint = 0

    for it in range(1,origdimt):

        tslice = list(newslice)
        tslice[dimtid] = it
        prevslice = list(newslice)
        prevslice[dimtid] = it - 1

        if opern == 'add':
            newvarv[tuple(tslice)] = newvarv[tuple(prevslice)] + varobj[tuple(tslice)]
            if searchInlist(varobj.ncattrs(), 'units') and newunits != '-':
                newunits = varobj.getncattr('units')
        elif opern == 'sub':
            newvarv[tuple(tslice)] = newvarv[tuple(prevslice)] - varobj[tuple(tslice)]
            if searchInlist(varobj.ncattrs(), 'units') and newunits != '-':
                newunits = varobj.getncattr('units')
        elif opern == 'mul':
            newvarv[tuple(tslice)] = newvarv[tuple(prevslice)] * varobj[tuple(tslice)]
        elif opern == 'div':
            newvarv[tuple(tslice)] = newvarv[tuple(prevslice)] / varobj[tuple(tslice)]
        elif opern == 'pot':
            newvarv[tuple(tslice)] = newvarv[tuple(prevslice)] **varobj[tuple(tslice)]
        
        it = it + 1

# Creation of the new file
    objofile = NetCDFFile(ofile, 'w')

# Dimensions
    for dimn in newdimns:

        dimobj = objnc.dimensions[dimn]
        if dimobj.isunlimited():
            print '      ' + fname + ': Unlimited dimension '
            dimsize = None
        else:
            dimsize = len(dimobj)

        newdim = objofile.createDimension(dimn, dimsize)

    newdim = objofile.createDimension('bnds', 2)

# Variables
    fvars = objnc.variables
    for varn in fvars:
        if varn != varname:
            varobj = objnc.variables[varn]
            if varn != timen:    
                if not searchInlist(varobj.dimensions,timen):
                    newvar = objofile.createVariable(varn, varobj.dtype,             \
                      varobj.dimensions)
                    for attrn in  varobj.ncattrs():
                        attrval = varobj.getncattr(attrn)
                        newattr = newvar.setncattr(attrn, attrval)
                    newvar[:] = varobj[:]
            else:
                    newvar = objofile.createVariable(varn, varobj.dtype, ('time'))
                    basicvardef(newvar, 'time', 'time steps','-')
                    timevals = varobj[:]
                    newvar[:] = timevals
                    newdimt = newvar.shape[0]
                    newattr = newvar.setncattr('bounds','time_bnds')

    newvar = objofile.createVariable('time_bnds', 'i4', ('bnds'))
    basicvardef(newvar, 'time_bnds', 'time steps bnds of accumulation','-')
    newvar[0] = timevals[0]
    newvar[1] = timevals[origdimt-1]

    newvar = objofile.createVariable('ac' + varname, vartype, vardims)
    newvar[:] = newvarv
    newattr = basicvardef(newvar, 'ac' + varname, 'accumulated ' + opern +           \
      ' values' , newunits)

# Global attributes
    for attrn in objnc.ncattrs():
        attrval = objnc.getncattr(attrn)
        newattr = objofile.setncattr(attrn, attrval)
    
    objnc.close()

    objofile.sync()
    objofile.close()

    print '  ' + fname + ' success written of "' + ofile + '" !!!!!'

    return 

#compute_opervaralltime('add|time', 'obs/PRCP.nc', 'product')

def setvar_asciivalues(values, ncfile, varname):
    """ Function to set de values of a variable with an ASCII file (common 
          Fortran-like format)
        values= asciifile: ASCII file with a Fortran-like structure
          [dim1]_1 [[dim2]_1 ... [dim2]_M]
          ...
          [dim1]_N
          NOTE: for character values, use '!' for space
        ncfile= netCDF file to use
        varname= variable to use
    """
    fname='setvar_asciivalues'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print setvar_asciivalues.__doc__
        quit()

    if not os.path.isfile(ncfile):
        print errormsg
        print '  ' + fname + ' file: "' + ncfile + '" does not exist !!'
        quit(-1)

    if not os.path.isfile(values):
        print errormsg
        print '  ' + fname + ' ASCII file: "' + values + '" does not exist !!'
        quit(-1)

    objnc = NetCDFFile(ncfile, 'a')

    if not objnc.variables.has_key(varname):
        print errormsg
        print '  ' + fname + ': netCDF file "' + ncfile +                            \
          '" does not have variable "' + varname + '" !!!!'
        quit(-1)

    objvar = objnc.variables[varname]

    vardims = objvar.shape
    vartype = objvar.dtype
    Ndims = len(vardims)

    objasciif = open(values, 'r')
    values = np.zeros((objvar.shape), dtype=vartype)

    it = 0
    if Ndims == 1:
        valfinal = np.zeros((1), dtype=vartype)
        for line in objasciif:
            val = (line.replace('\n','').replace(' ','').replace('\t',''))
            if vartype != '|S1':
                valfinal[0] = retype(val, vartype)
                if it <= values.shape[0]-1:
                    values[it] = retype(valfinal[0], vartype)
                    it = it +1
            else:
                for i1 in range(len(val)):
                    values[it] = val.replace('!',' ')
    elif Ndims == 2:
        iline=0
        for line in objasciif:
            vals = line.replace('\n','').replace('\t','').split(' ')
            if vartype != '|S1':
                if len(vals) != values.shape[1]:
                    print errormsg
                    print '  ' + fname + ': given: ',len(vals),' but variable ' +    \
                      'reaquires: ',values.shape[1],'!!!'
                    exit(-1)
                for i1 in range(len(vals)):
                    values[iline,i1] = retype(vals[i1], vartype)
            else:
                for i1 in range(len(vals)):
                    values[iline,i1] = vals[i1].replace('!',' ')
            iline=iline+1
    else:
        print errormsg
        print '  ' + fname + ': number of dimensions',Ndims,'not ready !!!!'
        quit(-1)

    objasciif.close()
    objvar[:] = values

    objnc.sync()
    objnc.close()

    return

#setvar_asciivalues('obstimes.inf', 'obs/re_project_accumulated-1h_PRCP.nc', 'time')

def statcompare_files(values):
    """ Python script to statistically compare two different files
      values= [file1]:[var1],[file2][var2] 
        [file1/2]: files to compare any diferent would be [file1]-[file2]
        [var1/2]: variable in file1/2 to compare
    """

    fname = 'statcompare_files'
    ofile='statcompare_files.nc'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print statcompare_files.__doc__
        quit()

    file1=values.split(',')[0].split(':')[0]
    var1=values.split(',')[0].split(':')[1]
    file2=values.split(',')[1].split(':')[0]
    var2=values.split(',')[1].split(':')[1]

    if not os.path.isfile(file1):
        print errormsg
        print '  ' + fname + ' file: "' + file1 + '" does not exist !!'
        quit(-1)

    objnc1 = NetCDFFile(file1, 'r')

    if not objnc1.variables.has_key(var1):
        print errormsg
        print '  ' + fname + ': netCDF file "' + file1 +                            \
          '" does not have variable "' + var1 + '" !!!!'
        quit(-1)

    if not os.path.isfile(file2):
        print errormsg
        print '  ' + fname + ' file: "' + file2 + '" does not exist !!'
        quit(-1)

    objnc2 = NetCDFFile(file2, 'r')

    if not objnc2.variables.has_key(var2):
        print errormsg
        print '  ' + fname + ': netCDF file "' + file2 +                            \
          '" does not have variable "' + var2 + '" !!!!'
        quit(-1)

    objvar1 = objnc1.variables[var1]
    objvar2 = objnc2.variables[var2]

    Ndim1 = len(objvar1.shape)
    Ndim2 = len(objvar2.shape)

    if Ndim1 != Ndim2:
        print errormsg
        print '  ' + fname + ' variable: "' + var1 + '" from file "' + file1 +       \
          '" does not have the same size:' , Ndim1, 'as variable: "' + var2 +        \
          '" from file "' + file2 + '": ',Ndim2
        quit(-1)
    
    dims1 = objvar1.shape
    dims2 = objvar2.shape

    for iid in range(Ndim1):
        if dims1[iid] != dims2[iid]:
            print errormsg
            print '  ' + fname + ' shape:',iid,'is different between variables!!!'
            print '    dim_var1:', dims1[iid], 'dim_var2:', dims2[iid]
            print '    var1 shape:', dims1
            print '    var2 shape:', dims2
            quit(-1)

    varvals1 = objvar1[:]
    varvals2 = objvar2[:]

    if Ndim1 == 3:
        timecompare = stats_time2Dvars(varvals1,varvals2)
        spacecompare = stats_space2Dvars(varvals1,varvals2)

        dimt = varvals1.shape[0]
        dimy = varvals1.shape[1]
        dimx = varvals1.shape[2]

#        print 'bias std.dev. ___________________________________'
#        for it in range(dimt):
#            print it,':',spacecompare.bias[it],spacecompare.stdv1Sv2[it]
#        print 'global spatial correlation (% significance)______'
#        for it in range(dimt):
#            print it, ':', spacecompare.corr[it], '(',                               \
#              (1.-spacecompare.p_value[it])*100.,')'
#        print 'spatial means temporal correlation:',spacecompare.meancorr,'(',       \
#          (1.-spacecompare.meanp_value)*100.,' % significance)'
#        print 'temporal means temporal correlation:',timecompare.meancorr,'(',       \
#          (1.-timecompare.meanp_value)*100.,' % significance)'

#        print 'temporal bias map________________________________'
#        print timecompare.meanv1Sv2

#        print 'temporal correlation map_________________________'
#        print timeecompare.corr

    else:
        print errormsg
        print '  ' + fname + ' numbe of dimensions:' + Ndim1 + ' not ready!!!'
        quit(-1)

# Creation of results file
##
    objofile = NetCDFFile(ofile, 'w')

# Dimensions
    for dimn in objnc1.dimensions:
        dimobj = objnc1.dimensions[dimn]
        if dimobj.isunlimited():
            print '      ' + fname + ': Unlimited dimension '
            dimsize = None
        else:
            dimsize = len(dimobj)

        newdim = objofile.createDimension(dimn, dimsize)

# Variables
    fvars = objnc1.variables
    for varn in fvars:
        if varn != var1:
            varobj = objnc1.variables[varn]
            if varn != var1:    
                newvar = objofile.createVariable(varn, varobj.dtype,                 \
                  varobj.dimensions)
                for attrn in  varobj.ncattrs():
                    attrval = varobj.getncattr(attrn)
                    newattr = newvar.setncattr(attrn, attrval)
                newvar[:] = varobj[:]

# Statistical variables
    vartype = objvar1.dtype
    varunits = objvar2.getncattr('units')

    print 'vartype=',vartype

# temporal bias
    newvar = objofile.createVariable('t_bias_'+var1+'_'+var2, vartype, ('y', 'x'),   \
      fill_value = fillValue)
    newvar[:] = timecompare.bias
    newattr = basicvardef(newvar, 't_bias_'+var1+'_'+var2, 'temporal bias between ' +\
      var1 + '&' + var2, varunits)

# temporal Standard deviation
    newvar = objofile.createVariable('t_stddev_'+var1+'_'+var2, vartype, ('y', 'x'), \
      fill_value = fillValue)
    newvar[:] = timecompare.stdv1Sv2
    newattr = basicvardef(newvar, 't_stddev_'+var1+'_'+var2,                         \
      'temporal standard deviation between '+ var1 + '&' + var2, varunits)

# space bias
    newvar = objofile.createVariable('s_bias_'+var1+'_'+var2, vartype, ('time'),     \
      fill_value = fillValue)
    newvar[:] = spacecompare.bias
    newattr = basicvardef(newvar, 's_bias_'+var1+'_'+var2, 'spatial bias between ' + \
      var1 + '&' + var2, varunits)

# space Standard deviation
    newvar = objofile.createVariable('s_stddev_'+var1+'_'+var2, vartype, ('time'),   \
      fill_value = fillValue)
    newvar[:] = spacecompare.stdv1Sv2
    newattr = basicvardef(newvar, 's_stddev_'+var1+'_'+var2,                         \
      'spatial standard deviation between '+ var1 + '&' + var2, varunits)

# t Correlation map
    newvar = objofile.createVariable('t_corr_'+var1+'_'+var2, vartype, ('y','x'),    \
      fill_value = fillValue)
    newvar[:] = timecompare.corr
    newattr = basicvardef(newvar, 't_corr_'+var1+'_'+var2,                           \
      'temporal correlation between ' +  var1 + '&' + var2, '-')
    newattr = newvar.setncattr('projection', 'lon lat')

# t p-value map
    newvar = objofile.createVariable('t_p_value_'+var1+'_'+var2, vartype, ('y','x'), \
      fill_value = fillValue)
    newvar[:] = timecompare.p_value
    newattr = basicvardef(newvar, 't_p_value_'+var1+'_'+var2,                        \
      'temporal p_value between ' + var1 + '&' + var2, '-')
    newattr = newvar.setncattr('projection', 'lon lat')

# s Correlation map
    newvar = objofile.createVariable('s_corr_'+var1+'_'+var2, vartype, ('time'),     \
      fill_value = fillValue)
    newvar[:] = spacecompare.corr
    newattr = basicvardef(newvar, 's_corr_'+var1+'_'+var2,                           \
      'spatial correlation between ' +  var1 + '&' + var2, '-')

# s p-value map
    newvar = objofile.createVariable('s_p_value_'+var1+'_'+var2, vartype, ('time'),  \
      fill_value = fillValue)
    newvar[:] = spacecompare.p_value
    newattr = basicvardef(newvar, 's_p_value_'+var1+'_'+var2,                        \
      'spatial p_value between ' + var1 + '&' + var2, '-')

#        print 'spatial means temporal correlation:',spacecompare.meancorr,'(',       \
#          (1.-spacecompare.meanp_value)*100.,' % significance)'

# t mean Correlation
    newvar = objofile.createVariable('t_mean_corr_'+var1+'_'+var2, 'f4')
    newvar[:] = timecompare.meancorr
    newattr = basicvardef(newvar, 't_mean_corr_'+var1+'_'+var2,                      \
      'time mean values correlation between ' +  var1 + '&' + var2, '-')

# t mean p-value
    newvar = objofile.createVariable('t_mean_p_value_'+var1+'_'+var2, 'f4')
    newvar[:] = timecompare.meanp_value
    newattr = basicvardef(newvar, 't_mean_p_value_'+var1+'_'+var2,                   \
      'time mean p_value between ' + var1 + '&' + var2, '-')

# s mean Correlation
    newvar = objofile.createVariable('s_mean_corr_'+var1+'_'+var2, 'f4')
    newvar[:] = spacecompare.meancorr
    newattr = basicvardef(newvar, 's_mean_corr_'+var1+'_'+var2,                      \
      'space mean values correlation between ' +  var1 + '&' + var2, '-')

# s mean p-value
    newvar = objofile.createVariable('s_mean_p_value_'+var1+'_'+var2, 'f4')
    newvar[:] = spacecompare.meanp_value
    newattr = basicvardef(newvar, 's_mean_p_value_'+var1+'_'+var2,                   \
      'space mean p_value between ' + var1 + '&' + var2, '-')

# Global attributes
    for attrn in objnc1.ncattrs():
        attrval = objnc1.getncattr(attrn)
        newattr = objofile.setncattr(attrn, attrval)

    newattr = objofile.setncattr('statisitcs', 'variables retrieved from files ' +   \
      file1 + ' & ' + file2)
    
    objnc1.close()
    objnc2.close()

    objofile.sync()
    objofile.close()

    varsfillvalue = ['t_bias_', 't_stddev_', 's_bias_', 's_stddev_', 't_corr_',      \
      't_p_value', 's_corr_', 's_p_value']

#    for varn in varsfillvalue:
#        print varn
#        fill = varaddattrk('_FillValue|'+ str(fillValue) + '|R32', ofile,          \
#          varn+var1+'_'+var2)

    print '  ' + fname + ': successfull generation of file "' + ofile + '" !!!!!'

    return 

#statcompare_files('control/sellonlatbox_wss_17-20.nc:wss,obs/re_project_Vu_17-20.nc:wss')

def sellonlatlevbox(values, ncfile, varn):
    """ Function to select a lotlan box and a given level from a data-set
      values= [lonName],[latName],[lonSW],[latSW],[lonNE],[latNE],[levi],[levf]
        [lonName]: name of the variable with the longitudes
        [latName]: name of the variable with the latitudes 
        [levName]: name of the variable with the value of the levels
        [lonSW],[latSW]: longitude and latitude of the SW vertex of the box
        [lonNE],[latNE]: longitude and latitude of the NE vertex of the box
        [levI],[levF]: range of levels to retrieve
      ncfile= netCDF file
      varn= name of the variable
    """
    fname = 'sellonlatlevbox'

    ofile = 'sellonlatlevbox_' + varn + '.nc'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print sellonlatlevbox.__doc__
        quit()

    lonn = values.split(',')[0]
    latn = values.split(',')[1]
    levn = values.split(',')[2]

    lonSW = np.float(values.split(',')[3])
    latSW = np.float(values.split(',')[4])
    lonNE = np.float(values.split(',')[5])
    latNE = np.float(values.split(',')[6])
    levI = int(values.split(',')[7])
    levF = int(values.split(',')[8])

    objfile = NetCDFFile(ncfile, 'r')
    lonobj = objfile.variables[lonn]
    latobj = objfile.variables[latn]
    levobj = objfile.variables[levn]

    lonv = lonobj[:]
    latv = latobj[:]
    levv = levobj[:]

    if not searchInlist(objfile.variables, varn):
        print errormsg
        print '  ' + fname + ': variable name "' + varn + '" is not in file "' +     \
          ncfile + '" !!!!!'
        quit(-1)

    varobj = objfile.variables[varn]

    Ndimslon = len(lonobj.shape)
    Ndimslat = len(latobj.shape)
    Ndimslev = len(levobj.shape)
    Ndimsvar = len(varobj.shape)

# Looking for coincidence of dimensions
    samedim = []
    for idv in range(Ndimsvar):
        for idl in range(Ndimslon):
            if varobj.dimensions[idv] == lonobj.dimensions[idl]:
                if not searchInlist(samedim,varobj.dimensions[idv]): 
                    samedim.append(varobj.dimensions[idv])
                    break
        for idl in range(Ndimslat):
            if varobj.dimensions[idv] == latobj.dimensions[idl]:
                if not searchInlist(samedim,varobj.dimensions[idv]): 
                    samedim.append(varobj.dimensions[idv])
                    break

    Ndimshare = len(samedim)
    print 'variable and lon/lat matrices share ', Ndimshare,' dimensions: ',samedim

    samedimslonlat = True
    for idL in range(Ndimslon):
        for idl in range(Ndimslat):
            if lonobj.dimensions[idl] != latobj.dimensions[idl]:
                samedimslonlat = False
                break

        if not samedimslonlat: break
    
# Creation of the lon/lat matrices to search
    if Ndimshare == 1:
        lonmat = lonobj[:]
        latmat = latobj[:]
    elif Ndimshare == 2:
        if samedimslonlat:
            lonmat = lonobj[:]
            latmat = latobj[:]
        else:
            if Ndimslon != 1 and Ndimslat != 1:
                print errormsg
                print '  ' + fname + ': I do not know how to keep going!'
                print '    lon ', Ndimslon,' and lat ',Ndimslat,                     \
                  ' matrices do not share the same dimensions, and do not have shape 1'
                quit(-1)
            else:
                lonmat = np.zeros((latobj.shape[0], lonobj.shape[0]), dtype=np.float)
                latmat = np.zeros((latobj.shape[0], lonobj.shape[0]), dtype=np.float)

                for i in range(lonobj.shape[0]):
                    latmat[:,i] = latobj[:]
                for j in range(latobj.shape[0]):
                    lonmat[j,:] = lonobj[:]
    elif Ndimshare == 3:
        if samedimslonlat:
            lonmat = lonobj[0,:,:]
            latmat = latobj[0,:,:]
    else:
        print errormsg
        print '  ' + fname + ': dimension sharing of lon/lat not ready!'
        quit(-1)

# Searching for inside points
    iind = 0
    if Ndimshare == 1:
        inside = {}
        for iL in range(lonobj.shape[0]):
            if lonobj[iL] >= lonSW and lonobj[iL] <= lonNE and latobj[iL] >= latSW   \
              and latobj[iL] <= latNE:
                inside[iind] = iL
                iind = iind + 1
    elif Ndimshare == 2:
        newidx = []
        newidy = []
        newidz = []
        if (len(lonobj.shape) == 3):
            inside3D = np.zeros((varobj.shape[1], lonobj.shape[1], lonobj.shape[2]), dtype=bool)
            inside2D = np.zeros((lonobj.shape[1], lonobj.shape[2]), dtype=bool)
            insideZ = np.zeros((varobj.shape[1]), dtype=bool)
        else:
            inside3D = np.zeros((varobj.shape[1], lonobj.shape), dtype=bool)
            inside2D = np.zeros((lonobj.shape), dtype=bool)
            insideZ = np.zeros((varobj.shape[1]), dtype=bool)

        for iL in range(lonobj.shape[1]):
            for il in range(lonobj.shape[0]):
                if lonobj[il,iL] >= lonSW and lonobj[il,iL] <= lonNE and             \
                  latobj[il,iL] >= latSW and latobj[il,iL] <= latNE:
                    inside2D[il, iL] = True
                    if not searchInlist(newidx, iL): newidx.append(iL)
                    if not searchInlist(newidy, il): newidy.append(il)
                    for iz in range(Ndimslev): 
                        if iz >= levI and iz <= levF:
                            if not searchInlist(newidz, iz): newidz.append(iz)
                            inside3D[iz,il, iL] = True
                            insideZ[iz] = True

                            iind = iind + 1
    elif Ndimshare == 3:
        newidx = []
        newidy = []
        newidz = []
        inside3D = np.zeros((varobj.shape[1], lonobj.shape[1], lonobj.shape[2]), dtype=bool)
        inside2D = np.zeros((lonobj.shape[1], lonobj.shape[2]), dtype=bool)
        insideZ = np.zeros((varobj.shape[1]), dtype=bool)

        for iL in range(lonobj.shape[2]):
            for il in range(lonobj.shape[1]):
                if lonobj[0,il,iL] >= lonSW and lonobj[0,il,iL] <= lonNE and         \
                  latobj[0,il,iL] >= latSW and latobj[0,il,iL] <= latNE:
                    inside2D[il, iL] = True
                    if not searchInlist(newidx, iL): newidx.append(iL)
                    if not searchInlist(newidy, il): newidy.append(il)
                    for iz in range(Ndimslev):
                        if iz >= levI and iz <= levF:
                            if not searchInlist(newidz, iz): newidz.append(iz)
                            inside3D[iz, il, iL] = True
                            insideZ[iz] = True

                            iind = iind + 1

    Ninpts3D = len(inside3D)
    Ninpts2D = len(inside2D)
    NinptsZ = len(insideZ)
    newdx = len(newidx)
    newdy = len(newidy)
    newdz = len(newidz)

    print '  ' + fname + ': ',Ninpts3D,' pts found in the box: ',lonSW,',',latSW,',', \
      levI,' x ', lonNE,',',latNE,',',levF
    print '  ' + fname + ': dimensions output matrix:', newdz, ',', newdy, ',', newdx

# Creation of cropped matrices
    Ninlev = levF - levI + 1
    inlon = np.zeros((Ninpts2D), dtype=np.float)
    inlat = np.zeros((Ninpts2D), dtype=np.float)
    inlev = np.zeros((NinptsZ), dtype=np.float)
    invar = np.zeros((varobj.shape[0],Ninpts3D), dtype=np.float)

# Creation of the netCDF file
##
    objofile = NetCDFFile(ofile, 'w')

    if Ndimshare == 1:

# Dimensions
        newdim = objofile.createDimension('boxpt', Ninpts3D)
        newdim = objofile.createDimension('time', None)

# var dimensions
        newvar = objofile.createVariable('lon', 'f8', ('boxpt'))
        newattr = basicvardef(newvar, 'lon', 'longitude', 'degrees west_east')
        newvar[:] = lonobj[inside2D[iin]]

        newvar = objofile.createVariable('lat', 'f8', ('boxpt'))
        newattr = basicvardef(newvar, 'lat', 'latitude', 'degrees north_south')
        newvar[:] = latobj[inside2D[iin]]

        newvar = objofile.createVariable('lev', 'f8', ('NinptsZ'))
        newattr = basicvardef(newvar, 'lev', 'level', '-')
        newvar[:] = levobj[insideZ[iin]]

        newvar = objofile.createVariable('time', 'f8', ('time'))
        if objfile.variables.has_key('time'):
            otime = objfile.variables['time']
            timevals = otime[:]
            if searchInlist(otime.ncattrs(),'units'):
                tunits = otime.getncattr['units']
            else:
                tunits = 'unkown'
        else:
            timevals = np.arange(varobj.shape[0])
            tunits = 'unkown'

        newattr = basicvardef(newvar, 'time', 'time', tunits)

        newvar[:] = timevals

# variable
        newvar = objofile.createVariable(varn, 'f4', ('time', 'boxpt'))
        newvar[:] = varobj[invar]
    else:

# Dimensions
        newdim = objofile.createDimension('x', newdx)
        newdim = objofile.createDimension('y', newdy)
        newdim = objofile.createDimension('z', newdz)
        newdim = objofile.createDimension('time', None)

# var dimensions
        newvar = objofile.createVariable('lon', 'f8', ('y', 'x'))
        if Ndimshare == 2:
          Vals = lonobj[:]
        else:
          Vals = lonobj[0,:,:]

        for it in range(varobj.shape[0]):
            newvar[:] = Vals[inside2D].reshape(newdy,newdx)

        newattr = basicvardef(newvar, 'lon', 'longitude', 'degrees west_east')

        newvar = objofile.createVariable('lat', 'f8', ('y', 'x'))
        newattr = basicvardef(newvar, 'lat', 'latitude', 'degrees north_south')
        if Ndimshare == 2:
          Vals = latobj[:]
        else:
          Vals = latobj[0,:,:]

        for it in range(varobj.shape[0]):
            newvar[:] = Vals[inside2D].reshape(newdy,newdx)

        newvar = objofile.createVariable('lev', 'f8', ('z'))
        newattr = basicvardef(newvar, 'lev', 'level', '-')
        if len(levobj.shape) == 2:
            newvar[:] = levobj[0,insideZ]
        else:
            newvar[:] = levobj[insideZ]

        newvar = objofile.createVariable('time', 'f8', ('time'))
        if objfile.variables.has_key('time'):
            otime = objfile.variables['time']
            timevals = otime[:]
            if searchInlist(otime.ncattrs(),'units'):
                tunits = otime.getncattr['units']
            else:
                tunits = 'unkown'
        else:
            timevals = np.arange(varobj.shape[0])
            tunits = 'unkown'

        newattr = basicvardef(newvar, 'time', 'time', tunits)

        newvar[:] = timevals

# variable
        newvar = objofile.createVariable(varn, 'f4', ('time', 'z', 'y', 'x'))
        for it in range(varobj.shape[0]):
            valsvar = varobj[it,:,:,:]
            newvar[it,:,:,:] = valsvar[inside3D]

    if searchInlist(varobj.ncattrs(),'standard_name'):
        vsname = varobj.getncattr('standard_name')
    else:
        vsname = varn
    if searchInlist(varobj.ncattrs(),'long_name'):
        vlname = varobj.getncattr('long_name')
    else:
        vlname = varn
    if searchInlist(varobj.ncattrs(),'units'):
        vunits = varobj.getncattr('units')
    else:
        vunits = 'unkown'

    newattr = basicvardef(newvar, vsname, vlname, vunits)

# global attributes
    objofile.setncattr('author', 'L. Fita')
    objofile.setncattr('institution', 'Laboratire de Meteorologie Dynamique')
    objofile.setncattr('university', 'Pierre Marie Curie - Jussieu')
    objofile.setncattr('center', 'Centre National de Recherches Scientifiques')
    objofile.setncattr('city', 'Paris')
    objofile.setncattr('country', 'France')
    objofile.setncattr('script', 'nc_var_tools.py')
    objofile.setncattr('function', 'sellonlatlevbox')
    objofile.setncattr('version', '1.0')

    objfile.close()

    objofile.sync()
    objofile.close()

    print '  ' + fname + ': successful creation of file "' + ofile + '" !!!'

    return

#sellonlatlevbox('XLONG,XLAT,ZNU,-12.4,25.35,32.4,52.65,0,0', 'control/wrfout_d01_2001-11-09_00:00:00', 'P')

def compute_tevolboxtraj(values, ncfile, varn):
    """ Function to compute tevolboxtraj: temporal evolution at a given point along 
          a box following a trajectory
      values= [trajfile]@[Tbeg],[lonname],[latname],[zname],[timename],[timekind],[boxsize],[circler]
        [trajfile]: ASCII file with the trajectory ('#' not readed)
          [time] [xpoint] [ypoint]
        [Tbeg]: equivalent first time-step of the trajectory within the netCDF file
        [lonname],[latname],[zname],[timename]: longitude, latitude, z and time variables names
        [timekind]: kind of time
          'cf': cf-compilant
          'wrf': WRF kind
        [boxsize]: size in grid points of the box (square centered, better even number!)
        [circler]: radius in grid points of a centerd circle (as 2*circler+1)
      ncfile= netCDF file to use
      varn= ',' list of variables' name ('all', for all variables)
        EMERGENCY version, assuming 3D [time,lat,lon] variable !
    """
    import numpy.ma as ma
    import subprocess as sub

    fname='compute_tevolboxtraj'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print compute_tevolboxtraj.__doc__
        quit()

    arguments = '[trajfile]@[Tbeg],[lonname],[latname],[zname],[timename],' +        \
      '[timekind],[boxsize],[circler]]'
    check_arguments(fname,values,arguments,',')

    trajfile = values.split(',')[0].split('@')[0]
    Tbeg = int(values.split(',')[0].split('@')[1])
    lonn = values.split(',')[1]
    latn = values.split(',')[2]
    zn = values.split(',')[3]
    timn = values.split(',')[4]
    timekind = values.split(',')[5]
    boxs = int(values.split(',')[6])
    circler = int(values.split(',')[7])

    if np.mod(boxs,2) != 1:
        print errormsg
        print '  ' + fname + ': box size:', boxs, 'is not even !!!'
        quit(-1)
    
    box2 = int(boxs/2)

    if not os.path.isfile(ncfile):
        print errormsg
        print '  ' + fname + " netCDF file: '" + ncfile + "' does not exist !!"
        quit(-1)

    if not os.path.isfile(trajfile):
        print errormsg
        print '  ' + fname + " trajectory file: '" + trajfile + "' does not exist !!"
        quit(-1)

# circle values
#    radius = np.float(rboxs.split('#')[0])
#    ddist = np.float(rboxs.split('#')[1])
#    if radius < ddist:
#        print errormsg
#        print '  ' + fname + ': radius of the circle:',radius,' is smaller than ' +  \
#          'the distance between grid points !!'
#        quit(-1)
#    else:
#        Nrad = int(radius/ddist)
    Nrad = int(circler)

    objfile = NetCDFFile(ncfile, 'r')
    lonobj = objfile.variables[lonn]
    latobj = objfile.variables[latn]
    timobj = objfile.variables[timn]

    if varn.find(',') != -1:
        varns = varn.split(',')
    else:
        if varn == 'all':
            varns = objfile.variables
        else:
            varns = [varn]

    lonv, latv = lonlat2D(lonobj[:],latobj[:])

    dimx = lonv.shape[1]
    dimy = lonv.shape[0]

    timv = timobj[:]

# Selecting accordingly a trajectory
##
    Ttraj = file_nlines(trajfile,'#')
    if timekind == 'wrf':
        dimt = objfile.variables[timn].shape[0]
    else:
        dimt = objfile.variables[timn].shape[0]

    if Tbeg + Ttraj > dimt:
        print errormsg
        print '  ' + fname + ': trajectory has ', Ttraj, ' time steps and starts ' + \
        ' at',Tbeg,' and data',dimt, '" !!!!!'
        quit(-1)

    print '    ' + fname + ': Number of time-steps in trajectory file: ',Ttraj, 'dimt',dimt

    trajobj = open(trajfile,'r')

# Trajectory values/slices
##
    iline = 0
    it = 0

    xrangeslice = []
    yrangeslice = []
    xrangeslice2D = []
    yrangeslice2D = []

    cxrangeslice = []
    cyrangeslice = []
    cxrangeslice2D = []
    cyrangeslice2D = []

    cslicev = []
    cslice2D = []
    cslicevnoT = []

    gtrajvals = np.zeros((Ttraj,3), dtype=int)
    trajvals = np.zeros((Ttraj,3), dtype=np.float)
    circdist = np.zeros((Ttraj, dimy, dimx), dtype=np.float)

    it = 0
    iline = 0
    for line in trajobj:

## Skipping first line
##        if not iline == 0:
##        it = iline - 1
##        it = iline

# Slicing brings to reduce 1 time-step.... ???
        if line[0:1] != '#':
            gtrajvals[it,0] = Tbeg + iline - 1
            gtrajvals[it,1] = int(line.split(' ')[1])
            gtrajvals[it,2] = int(line.split(' ')[2])
#            print it,'t:',gtrajvals[it,0],'x y:', gtrajvals[it,1], gtrajvals[it,2]
        
            if timekind == 'wrf':
                gdate = datetimeStr_conversion(timv[gtrajvals[it,0]],'WRFdatetime',  \
                  'matYmdHMS')
                trajvals[it,0] = realdatetime1_CFcompilant(gdate, '19491201000000',  \
                  'hours')
                tunits = 'hours since 1949-12-01 00:00:00'
            elif timekind == 'cf':
                trajvals[it,0] = timv[gtrajvals[it,0]]
                tunits = timobj.getncattr('units')
            else:
                print errormsg
                print '  ' + fname + ' time kind: "' + timekind + '" not ready !!'
                quit(-1)

            trajvals[it,1] = lonv[gtrajvals[it,2],gtrajvals[it,1]]
            trajvals[it,2] = latv[gtrajvals[it,2],gtrajvals[it,1]]

#            print iline, it,'time:',trajvals[it,0],'lon lat:', trajvals[it,1],       \
#              trajvals[it,2]

# Assuming time as the first dimension in a fortran like way (t=0 as 1)
#            trajcut[0] = tstept - 1
# Assuming time as the first dimension in a C/python like way (t=0)

# box values
            if gtrajvals[it,2]-box2 < 0 or gtrajvals[it,2]+box2 + 1 > dimy + 1       \
              or gtrajvals[it,1]-box2 < 0 or gtrajvals[it,1]+box2 + 1 > dimx + 1:

                varvalst = np.ones((boxs, boxs), dtype=np.float)*fillValue

                if gtrajvals[it,2]-box2 < 0: 
                    yinit = 0
                    yinit2D = box2 - gtrajvals[it,2]
                else:
                    yinit = gtrajvals[it,2]-box2
                    yinit2D = 0

                if gtrajvals[it,2]+box2 + 1 > dimy: 
                    yend = dimy - 1
                    yend2D = dimy - 1 - gtrajvals[it,2] + box2
                else:
                    yend = gtrajvals[it,2]+box2 + 1
                    yend2D = boxs

                if gtrajvals[it,1]-box2 < 0: 
                    xinit = 0
                    xinit2D = box2 - gtrajvals[it,1]
                else:
                    xinit = gtrajvals[it,1]-box2
                    xinit2D = 0

                if gtrajvals[it,1]+box2 + 1 > dimx: 
                    xend = dimx - 1
                    xend2D = dimx - 1 - gtrajvals[it,1] - box2
                else:
                    xend = gtrajvals[it,1]+box2 + 1
                    xend2D = boxs

                yrangeslice.append([yinit, yend])
                xrangeslice.append([xinit, xend])
                yrangeslice2D.append([yinit2D, yend2D])
                xrangeslice2D.append([xinit2D, xend2D])
            else:
                yrangeslice.append([gtrajvals[it,2]-box2, gtrajvals[it,2]+box2 + 1])
                xrangeslice.append([gtrajvals[it,1]-box2, gtrajvals[it,1]+box2 + 1])
                yrangeslice2D.append([gtrajvals[it,2]-box2, gtrajvals[it,2]+box2 + 1])
                xrangeslice2D.append([gtrajvals[it,1]-box2, gtrajvals[it,1]+box2 + 1])

# circle values
            circdist[it,:,:] = radius_dist(dimy,dimx,gtrajvals[it,2],gtrajvals[it,1])
            if gtrajvals[it,2]-Nrad < 0 or gtrajvals[it,2]+Nrad + 1 > dimy + 1 \
              or gtrajvals[it,1]-Nrad < 0 or gtrajvals[it,1]+Nrad + 1 > dimx + 1:

                if gtrajvals[it,2]-Nrad < 0: 
                    yinit = 0
                    yinit2D = Nrad - gtrajvals[it,2]
                else:
                    yinit = gtrajvals[it,2]-Nrad
                    yinit2D = 0

                if gtrajvals[it,2]+Nrad + 1 > dimy: 
                    yend = dimy - 1
                    yend2D = dimy - 1 - gtrajvals[it,2] + Nrad
                else:
                    yend = gtrajvals[it,2]+Nrad + 1
                    yend2D = 2*Nrad+1

                if gtrajvals[it,1]-Nrad < 0: 
                    xinit = 0
                    xinit2D = Nrad - gtrajvals[it,1]
                else:
                    xinit = gtrajvals[it,1]-Nrad
                    xinit2D = 0

                if gtrajvals[it,1]+Nrad + 1 > dimx: 
                    xend = dimx - 1
                    xend2D = dimx - 1 - gtrajvals[it,1] - Nrad
                else:
                    xend = gtrajvals[it,1]+Nrad + 1
                    xend2D = 2*Nrad+1

                cyrangeslice.append([yinit, yend])
                cxrangeslice.append([xinit, xend])
                cyrangeslice2D.append([yinit2D, yend2D])
                cxrangeslice2D.append([xinit2D, xend2D])
            else:
                cyrangeslice.append([gtrajvals[it,2]-Nrad, gtrajvals[it,2]+Nrad + 1])
                cxrangeslice.append([gtrajvals[it,1]-Nrad, gtrajvals[it,1]+Nrad + 1])
                cyrangeslice2D.append([gtrajvals[it,2]-Nrad, gtrajvals[it,2]+Nrad+1])
                cxrangeslice2D.append([gtrajvals[it,1]-Nrad, gtrajvals[it,1]+Nrad+1])
            it = it + 1
            iline = iline + 1

    trajobj.close()
# Creation of the netCDF file
##
    if varn.find(',') != -1:
        varnS = 'multi-var'
    else:
        varnS = varn.replace(',','-')

    ofile = 'tevolboxtraj_' + varnS + '.nc'
    objofile = NetCDFFile(ofile, 'w')

# Dimensions
    newdim = objofile.createDimension('x', boxs)
    newdim = objofile.createDimension('y', boxs)
    newdim = objofile.createDimension('xr', Nrad*2+1)
    newdim = objofile.createDimension('yr', Nrad*2+1)
    newdim = objofile.createDimension('time', None)

    stsn = ['min', 'max', 'mean', 'mean2', 'stdev', 'ac']
    vstlname = ['minimum value within', 'maximum value within', 'mean value within', \
      'squared mean value within', 'standard deviation value within',                \
      'accumulated value within']
    Nsts = len(stsn)
    statnames = []
    cstatnames = []
    for i in range(Nsts):
        statnames.append(stsn[i] + 'box')
        cstatnames.append(stsn[i] + 'circle')

# Getting values
##
    ivar = 0

    for vn in varns:
        vnst = variables_values(vn)[0]
        if not searchInlist(objfile.variables, vn):
            print errormsg
            print '  ' + fname + ": variable name '" + vn + "' is not in file " +    \
              ncfile + '" !!!!!'
            quit(-1)

        varobj = objfile.variables[vn]
        Nvardims = len(varobj.shape)

        print '  ' + fname + ": getting '" + vn + "' ... .. ." 

        slicev = []
        slice2D = []
        slicevnoT = []
        cslicev = []
        cslice2D = []
        cslicevnoT = []

        if Nvardims == 4:
# Too optimistic, but at this stage...
            if not objofile.dimensions.has_key('z'):
                varzobj = objfile.variables[zn]
                if len(varzobj.shape) == 1:
                    dimz = varzobj.shape
                    zvals = varzobj[:]
                elif len(varzobj.shape) == 2:
                    dimz = varzobj.shape[1]
                    zvals = varzobj[0,:]
                elif len(varzobj.shape) == 3:
                    dimz = varzobj.shape[2]
                    zvals = varzobj[0,0,:]

                objofile.createDimension('z', dimz)
                newvar = objofile.createVariable(zn, 'f4', ('z'),fill_value=fillValue)
                if searchInlist(varzobj.ncattrs(),'standard_name'):
                    vsname = varzobj.getncattr('standard_name')
                else:
                    vsname = variables_values(zn)[1]
                if searchInlist(varzobj.ncattrs(),'long_name'):
                    vlname = varzobj.getncattr('long_name')
                else:
                    vlname = variables_values(zn)[4].replace('|',' ')
                if searchInlist(varzobj.ncattrs(),'units'):
                    vunits = varzobj.getncattr('units')
                else:
                    vunits = variables_values(zn)[5].replace('|',' ')
    
                newattr = basicvardef(newvar, vsname, vlname, vunits)
                newvar[:] = zvals
 
            varvals = np.ones(tuple([Ttraj,dimz,boxs,boxs]), dtype=np.float)
            lonvals = np.ones(tuple([Ttraj,dimz,boxs,boxs]), dtype=np.float)
            latvals = np.ones(tuple([Ttraj,boxs,boxs]), dtype=np.float)
            rvarvals = np.ones(tuple([Ttraj,dimz,Nrad*2+1,Nrad*2+1]), dtype=np.float)
            rlonvals = np.ones(tuple([Ttraj,dimz,Nrad*2+1,Nrad*2+1]), dtype=np.float)
            rlatvals = np.ones(tuple([Ttraj,dimz,Nrad*2+1,Nrad*2+1]), dtype=np.float)

# One dimension plus for the values at the center of the trajectory
            statvarvals = np.ones(tuple([Ttraj,dimz,Nsts+1]), dtype=np.float)
            rstatvarvals = np.ones(tuple([Ttraj,dimz,Nsts+1]), dtype=np.float)

            for it in range(Ttraj):
                it0 = Tbeg + it

                slicev = []
                slice2D = []
                slicevnoT = []
                cslicev = []
                cslice2D = []
                cslice2Dhor = []
                cslicevnoT = []
                cslicevnoThor = []

                slicev.append(gtrajvals[it,0])
                if gtrajvals[it,2]-box2 < 0 or gtrajvals[it,2]+box2 + 1 > dimy + 1   \
                  or gtrajvals[it,1]-box2 < 0 or gtrajvals[it,1]+box2 + 1 > dimx +1:
# box values
                    slicev.append(slice(0,dimz))
                    slicev.append(slice(yrangeslice[it][0],yrangeslice[it][1]))
                    slicev.append(slice(xrangeslice[it][0],xrangeslice[it][1]))

                    slicevnoT.append(slice(0,dimz))
                    slicevnoT.append(slice(yrangeslice[it][0],yrangeslice[it][1]))
                    slicevnoT.append(slice(xrangeslice[it][0],xrangeslice[it][1]))

                    slice2D.append(slice(0,dimz))
                    slice2D.append(slice(0,yrangeslice[it][1]-yrangeslice[it][0]))
                    slice2D.append(slice(0,xrangeslice[it][1]-xrangeslice[it][0]))

                    rvarvalst = np.ones((dimz, Nrad*2+1, Nrad*2+1),dtype=np.float)*  \
                      fillValue

                    varvalst[tuple(slice2D)] = varobj[tuple(slicev)]
                    varvals[it,:,:,:] = varvalst
    
# box stats values
                    maskedvals = ma.masked_values (varvalst, fillValue)
                    maskedvals2 = maskedvals*maskedvals
                    for iz in range(dimz):
                        statvarvals[it,iz,0] = varvalst[iz,box2,box2]
                        statvarvals[it,iz,1] = np.min(varvalst[iz,:,:])
                        statvarvals[it,iz,2] = np.max(varvalst[iz,:,:])
                        statvarvals[it,iz,3] = np.mean(varvalst[iz,:,:])
                        statvarvals[it,iz,4] = maskedvals2[iz,:,:].mean()
                        statvarvals[it,iz,5] = np.sqrt(statvarvals[it,iz,4] -        \
                          statvarvals[it,iz,3]*statvarvals[it,iz,3])
                        statvarvals[it,iz,6] = np.sum(varvalst[iz,:,:])

                else:
                    slicev.append(slice(0,dimz))
                    slicev.append(slice(gtrajvals[it,2]-box2, gtrajvals[it,2]+box2+1))
                    slicev.append(slice(gtrajvals[it,1]-box2, gtrajvals[it,1]+box2+1))
                    slicevnoT.append(slice(0,dimz))
                    slicevnoT.append(slice(gtrajvals[it,2]-box2, gtrajvals[it,2]+    \
                      box2+1))
                    slicevnoT.append(slice(gtrajvals[it,1]-box2, gtrajvals[it,1]+    \
                      box2+1))
                    slice2D.append(slice(0,dimz))
                    slice2D.append(slice(gtrajvals[it,2]-box2, gtrajvals[it,2] +     \
                      box2 + 1))
                    slice2D.append(slice(gtrajvals[it,1]-box2, gtrajvals[it,1] +     \
                      box2 + 1))

                    varvalst = varobj[tuple(slicev)]
# box values

                    varvals[it,:,:,:] = varvalst
#                    print 'values at time t______'
#                    print varvalst

# box stats values
                    for iz in range(dimz):
                        statvarvals[it,:,0] = varvalst[:,box2,box2]
                        statvarvals[it,iz,1] = np.min(varvalst[iz,:,:])
                        statvarvals[it,iz,2] = np.max(varvalst[iz,:,:])
                        statvarvals[it,iz,3] = np.mean(varvalst[iz,:,:])
                        statvarvals[it,iz,4] = np.mean(varvalst[iz,:,:]*             \
                          varvalst[iz,:,:])
                        statvarvals[it,iz,5] = np.sqrt(statvarvals[it,iz,4] -        \
                          statvarvals[it,iz,3]*statvarvals[it,iz,3])
                        statvarvals[it,iz,6] = np.sum(varvalst[iz,:,:])

# Circle values
                cslicev.append(gtrajvals[it,0])
                if gtrajvals[it,2]-Nrad < 0 or gtrajvals[it,2]+Nrad + 1 >= dimy       \
                  or gtrajvals[it,1]-Nrad < 0 or gtrajvals[it,1]+Nrad + 1 >= dimx:

                    maxx = np.min([cxrangeslice[it][1], dimx])
                    maxy = np.min([cyrangeslice[it][1], dimy])
                    cslicev.append(slice(0,dimz))
                    cslicev.append(slice(cyrangeslice[it][0], maxy))
                    cslicev.append(slice(cxrangeslice[it][0], maxx)) 

                    cslicevnoT.append(slice(0,dimz))
                    cslicevnoT.append(slice(cyrangeslice[it][0], cyrangeslice[it][1]))
                    cslicevnoT.append(slice(cxrangeslice[it][0], cxrangeslice[it][1]))

                    cslice2D.append(slice(0,dimz))
                    cslice2D.append(slice(0,maxy-cyrangeslice[it][0]))
                    cslice2D.append(slice(0,maxx-cxrangeslice[it][0]))
                    cslice2Dhor.append(slice(0, maxy - cyrangeslice[it][0]))
                    cslice2Dhor.append(slice(0, maxx -cxrangeslice[it][0]))

                    rvarvalst = np.ones((dimz,Nrad*2+1,Nrad*2+1),dtype=np.float)*    \
                      fillValue
                    rvarvalst[tuple(cslice2D)] = varobj[tuple(cslicev)]
                    for iz in range(dimz):
                        tslice = [slice(it,it)]+cslice2Dhor
                        zslice = [slice(iz,iz)]+cslice2Dhor
                        rvarvalst[tuple(zslice)] = np.where(circdist[tuple(tslice)] > \
                          np.float(Nrad), fillValue, rvarvalst[tuple(zslice)]) 

                    rvarvals[it,:,:,:] = rvarvalst

# circle stats values
                    maskedvals = ma.masked_values (rvarvalst, fillValue)
                    maskedvals2 = maskedvals*maskedvals
                    for iz in range(dimz):
                        rstatvarvals[it,iz,0] = varvalst[iz,box2,box2]
                        rstatvarvals[it,iz,1] = np.min(varvalst[iz,:,:])
                        rstatvarvals[it,iz,2] = np.max(varvalst[iz,:,:])
                        rstatvarvals[it,iz,3] = np.mean(varvalst[iz,:,:])
                        rstatvarvals[it,iz,4] = maskedvals2[iz,:,:].mean()
                        rstatvarvals[it,iz,5] = np.sqrt(rstatvarvals[it,iz,4] -      \
                          rstatvarvals[it,iz,3]*rstatvarvals[it,iz,3])
                        rstatvarvals[it,iz,6] = np.sum(varvalst[iz,:,:])

                else:
                    cslicev.append(slice(0,dimz))
                    cslicev.append(slice(gtrajvals[it,2]-Nrad,gtrajvals[it,2]+Nrad+1))
                    cslicev.append(slice(gtrajvals[it,1]-Nrad,gtrajvals[it,1]+Nrad+1))
                    cslicevnoT.append(slice(0,dimz))
                    cslicevnoT.append(slice(gtrajvals[it,2]-Nrad, gtrajvals[it,2]+   \
                      Nrad+1))
                    cslicevnoT.append(slice(gtrajvals[it,1]-Nrad, gtrajvals[it,1]+   \
                      Nrad+1))
                    cslicevnoThor.append(slice(gtrajvals[it,2]-Nrad,                 \
                      gtrajvals[it,2] + Nrad+1))
                    cslicevnoThor.append(slice(gtrajvals[it,1]-Nrad,                 \
                      gtrajvals[it,1] + Nrad+1))
                    cslice2D.append(slice(0,dimz))
                    cslice2D.append(slice(gtrajvals[it,2]-Nrad,gtrajvals[it,2] +     \
                      Nrad+1))
                    cslice2D.append(slice(gtrajvals[it,1]-Nrad,gtrajvals[it,1] +     \
                      Nrad+1))

                    rvarvalst = varobj[tuple(cslicev)]
# circle values
                    for iz in range(dimz):
                        tslice = [it]+cslicevnoThor
                        rvarvalst[iz,:,:] = np.where(circdist[tuple(tslice)] >       \
                          np.float(Nrad), fillValue, rvarvalst[iz,:,:]) 

                    rvarvals[it,:,:,:] = rvarvalst

# circle stats values
                    maskedvals = ma.masked_values (rvarvalst, fillValue)
                    maskedvals2 = maskedvals*maskedvals
                    for iz in range(dimz):
                        rstatvarvals[it,iz,0] = rvarvalst[iz,Nrad,Nrad]
                        rstatvarvals[it,iz,1] = maskedvals[iz,:,:].min()
                        rstatvarvals[it,iz,2] = maskedvals[iz,:,:].max()
                        rstatvarvals[it,iz,3] = maskedvals[iz,:,:].mean()
                        rstatvarvals[it,iz,4] = maskedvals2[iz,:,:].mean()
                        rstatvarvals[it,iz,5] = np.sqrt(rstatvarvals[it,iz,4] -      \
                          rstatvarvals[it,iz,3]*rstatvarvals[it,iz,3])
                        rstatvarvals[it,iz,6] = maskedvals[iz,:,:].sum()

#            print 'statistics:',rstatvarvals[it,:] 

# variable box values
            newvar = objofile.createVariable(vnst + 'box', 'f4', ('time','z','y','x'),\
              fill_value=fillValue)
            if searchInlist(varobj.ncattrs(),'standard_name'):
                vsname = varobj.getncattr('standard_name')
            else:
                vsname = variables_values(vn)[1]
            if searchInlist(varobj.ncattrs(),'long_name'):
                vlname = varobj.getncattr('long_name')
            else:
                vlname = variables_values(vn)[4].replace('|',' ')
            if searchInlist(varobj.ncattrs(),'units'):
                vunits = varobj.getncattr('units')
            else:
                vunits = variables_values(vn)[5].replace('|',' ')

            newattr = basicvardef(newvar, vsname, vlname, vunits)
            newattr = newvar.setncattr('projection','lon lat')
            newvar[:] = varvals

# center of the trajectory
            newvar = objofile.createVariable('trj_' + vnst, 'f', ('time','z'),     \
              fill_value=fillValue)
            newattr = basicvardef(newvar, 'trj_' + vsname, 'value along the ' +    \
              'trajectory of '+ vn, vunits)
            newvar[:] = statvarvals[:,:,0]

# variable box statistics
            ist = 0
            for statn in statnames:
                newvar = objofile.createVariable(statn + '_' + vnst,'f',('time','z'),\
                  fill_value=fillValue)
                newattr = basicvardef(newvar, statn + '_' + vsname, vstlname[ist] +  \
                  ' the box ('+str(boxs)+'x'+str(boxs)+') of ' + vnst, vunits)
                newvar[:] = statvarvals[:,:,ist+1]
#                newattr = set_attributek(newvar,'_FillValue',fillValue,'npfloat')
                ist = ist + 1
        
# variable circle values
            newvar = objofile.createVariable(vnst + 'circle','f4',('time','z','yr',    \
              'xr'), fill_value=fillValue)
            if searchInlist(varobj.ncattrs(),'standard_name'):
                vsname = varobj.getncattr('standard_name')
            else:
                vsname = variables_values(vn)[1]
            if searchInlist(varobj.ncattrs(),'long_name'):
                vlname = varobj.getncattr('long_name')
            else:
                vlname = variables_values(vn)[4].replace('|',' ')
            if searchInlist(varobj.ncattrs(),'units'):
                vunits = varobj.getncattr('units')
            else:
                vunits = variables_values(vn)[5].replace('|',' ')

            newattr = basicvardef(newvar, vsname, vlname, vunits)
            newattr = newvar.setncattr('projection','lon lat')
            newvar[:] = rvarvals

# variable circle statistics
            ist = 0
            for statn in cstatnames:
                newvar = objofile.createVariable(statn + '_' + vnst,'f',('time','z'),\
                  fill_value=fillValue)
                newattr = basicvardef(newvar, statn + '_' + vsname, vstlname[ist] +  \
                  ' the circle of radius ('+ str(circler)+') of ' + vnst, vunits)
                newvar[:] = rstatvarvals[:,:,ist+1]
#                newattr = set_attributek(newvar,'_FillValue',fillValue,'npfloat')
                ist = ist + 1

        elif Nvardims == 3:
# Too optimistic, but at this stage...
            dimt = varobj.shape[0]
 
            varvals = np.ones(tuple([Ttraj,boxs,boxs]), dtype=np.float)
            lonvals = np.ones(tuple([Ttraj,boxs,boxs]), dtype=np.float)
            latvals = np.ones(tuple([Ttraj,boxs,boxs]), dtype=np.float)
            rvarvals = np.ones(tuple([Ttraj,Nrad*2+1,Nrad*2+1]), dtype=np.float)
            rlonvals = np.ones(tuple([Ttraj,Nrad*2+1,Nrad*2+1]), dtype=np.float)
            rlatvals = np.ones(tuple([Ttraj,Nrad*2+1,Nrad*2+1]), dtype=np.float)

# One dimension plus for the values at the center of the trajectory
            statvarvals = np.ones(tuple([Ttraj,Nsts+1]), dtype=np.float)
            rstatvarvals = np.ones(tuple([Ttraj,Nsts+1]), dtype=np.float)

            for it in range(Ttraj):
                it0 = Tbeg + it

                slicev = []
                slice2D = []
                slicevnoT = []
                cslicev = []
                cslice2D = []
                cslicevnoT = []
                cslicevC = []

                slicev.append(gtrajvals[it,0])
                if gtrajvals[it,2]-box2 < 0 or gtrajvals[it,2]+box2 + 1 > dimy + 1   \
                  or gtrajvals[it,1]-box2 < 0 or gtrajvals[it,1]+box2 + 1 > dimx + 1:
# box values
                    slicev.append(slice(yrangeslice[it][0],yrangeslice[it][1]))
                    slicev.append(slice(xrangeslice[it][0],xrangeslice[it][1]))

                    slicevnoT.append(slice(yrangeslice[it][0],yrangeslice[it][1]))
                    slicevnoT.append(slice(xrangeslice[it][0],xrangeslice[it][1]))

                    slice2D.append(slice(0,yrangeslice[it][1]-yrangeslice[it][0]))
                    slice2D.append(slice(0,xrangeslice[it][1]-xrangeslice[it][0]))

                    rvarvalst = np.ones((Nrad*2+1, Nrad*2+1),dtype=np.float)*fillValue
                    varvalst[tuple(slice2D)] = varobj[tuple(slicev)]
                    varvals[it,:,:] = varvalst
    
# box stats values
                    maskedvals = ma.masked_values (varvalst, fillValue)
                    statvarvals[it,0] = varvalst[box2,box2]
                    statvarvals[it,1] = maskedvals.min()
                    statvarvals[it,2] = maskedvals.max()
                    statvarvals[it,3] = maskedvals.mean()
                    maskedvals2 = maskedvals*maskedvals
                    statvarvals[it,4] = maskedvals2.mean()
                    statvarvals[it,5] = np.sqrt(statvarvals[it,4] -                   \
                      statvarvals[it,3]*statvarvals[it,3])
                    statvarvals[it,6] = maskedvals.sum()

                    varvalst[tuple(slice2D)] = lonv[tuple(slicevnoT)]
                    lonvals[it,:,:] = varvalst
                    varvalst[tuple(slice2D)] = latv[tuple(slicevnoT)]           
                    latvals[it,:,:] = varvalst

                else:
                    slicev.append(slice(gtrajvals[it,2]-box2, gtrajvals[it,2]+box2+1))
                    slicev.append(slice(gtrajvals[it,1]-box2, gtrajvals[it,1]+box2+1))
                    slicevnoT.append(slice(gtrajvals[it,2]-box2, gtrajvals[it,2]+    \
                      box2+1))
                    slicevnoT.append(slice(gtrajvals[it,1]-box2, gtrajvals[it,1]+    \
                      box2+1))

                    slice2D.append(slice(gtrajvals[it,2]-box2, gtrajvals[it,2]+box2 +\
                      1))
                    slice2D.append(slice(gtrajvals[it,1]-box2, gtrajvals[it,1]+box2 +\
                      1))

                    varvalst = varobj[tuple(slicev)]
# box values

                    varvals[it,:,:] = varvalst
#                    print 'values at time t______'
#                    print varvalst

# box stats values
                    statvarvals[it,0] = varvalst[box2,box2]
                    statvarvals[it,1] = np.min(varvalst)
                    statvarvals[it,2] = np.max(varvalst)
                    statvarvals[it,3] = np.mean(varvalst)
                    statvarvals[it,4] = np.mean(varvalst*varvalst)
                    statvarvals[it,5] = np.sqrt(statvarvals[it,4] -                  \
                      statvarvals[it,3]*statvarvals[it,3])
                    statvarvals[it,6] = np.sum(varvalst)

                    varvalst = lonv[tuple(slicevnoT)]
                    lonvals[it,:,:] = varvalst
                    varvalst = latv[tuple(slicevnoT)]           
                    latvals[it,:,:] = varvalst

# Circle values
                cslicev.append(gtrajvals[it,0])
                if gtrajvals[it,2]-Nrad < 0 or gtrajvals[it,2]+Nrad + 1 >= dimy      \
                  or gtrajvals[it,1]-Nrad < 0 or gtrajvals[it,1]+Nrad + 1 >= dimx:
                    maxx = np.min([cxrangeslice[it][1], dimx])
                    maxy = np.min([cyrangeslice[it][1], dimy])
                    cslicev.append(slice(cyrangeslice[it][0],maxy))
                    cslicev.append(slice(cxrangeslice[it][0],maxx))

                    cslicevnoT.append(slice(cyrangeslice[it][0],cyrangeslice[it][1]))
                    cslicevnoT.append(slice(cxrangeslice[it][0],cxrangeslice[it][1]))

                    cslice2D.append(slice(0,maxy - cyrangeslice[it][0]))
                    cslice2D.append(slice(0,maxx - cxrangeslice[it][0]))

                    rvarvalst = np.ones((Nrad*2+1,Nrad*2+1),dtype=np.float)*fillValue
                    rvarvalst[tuple(cslice2D)] = varobj[tuple(cslicev)]
                    rvarvalst[tuple(cslice2D)] = np.where(circdist[tuple(cslicev)] >\
                      np.float(Nrad), fillValue, rvarvalst[tuple(cslice2D)])

                    rvarvals[it,:,:] = rvarvalst

# circle stats values
                    maskedvals = ma.masked_values (rvarvalst, fillValue)
                    rstatvarvals[it,0] = rvarvalst[Nrad,Nrad]
                    rstatvarvals[it,1] = maskedvals.min()
                    rstatvarvals[it,2] = maskedvals.max()
                    rstatvarvals[it,3] = maskedvals.mean()
                    maskedvals2 = maskedvals*maskedvals
                    rstatvarvals[it,4] = maskedvals2.mean()
                    rstatvarvals[it,5] = np.sqrt(rstatvarvals[it,4] -                \
                      rstatvarvals[it,3]*rstatvarvals[it,3])
                    rstatvarvals[it,6] = maskedvals2.sum()

                else:
                    cslicev.append(slice(gtrajvals[it,2]-Nrad,gtrajvals[it,2]+Nrad+1))
                    cslicev.append(slice(gtrajvals[it,1]-Nrad,gtrajvals[it,1]+Nrad+1))
                    cslicevnoT.append(slice(gtrajvals[it,2]-Nrad, gtrajvals[it,2]+    \
                      Nrad+1))
                    cslicevnoT.append(slice(gtrajvals[it,1]-Nrad, gtrajvals[it,1]+    \
                      Nrad+1))

                    cslice2D.append(slice(gtrajvals[it,2]-Nrad,gtrajvals[it,2]+Nrad+1))
                    cslice2D.append(slice(gtrajvals[it,1]-Nrad,gtrajvals[it,1]+Nrad+1))

                    cslicevC.append(it)
                    cslicevC.append(slice(gtrajvals[it,2]-Nrad,gtrajvals[it,2]+Nrad+1))
                    cslicevC.append(slice(gtrajvals[it,1]-Nrad,gtrajvals[it,1]+Nrad+1))

                    rvarvalst = varobj[tuple(cslicev)]
                    cdist = circdist[tuple(cslicevC)]
# circle values
                    rvarvalst = np.where(cdist > np.float(Nrad),fillValue,rvarvalst)
                    rvarvals[it,:,:] = rvarvalst

# circle stats values
                    maskedvals = ma.masked_values (rvarvalst, fillValue)
                    rstatvarvals[it,0] = rvarvalst[Nrad,Nrad]
                    rstatvarvals[it,1] = maskedvals.min()
                    rstatvarvals[it,2] = maskedvals.max()
                    rstatvarvals[it,3] = maskedvals.mean()
                    maskedvals2 = maskedvals*maskedvals
                    rstatvarvals[it,4] = maskedvals2.mean()
                    rstatvarvals[it,5] = np.sqrt(rstatvarvals[it,4] -                \
                      rstatvarvals[it,3]*rstatvarvals[it,3])
                    rstatvarvals[it,6] = maskedvals.sum()

#            print 'statistics:',rstatvarvals[it,:] 

# variable box values
            newvar = objofile.createVariable(vnst + 'box', 'f4', ('time', 'y', 'x'), \
              fill_value=fillValue)
            if searchInlist(varobj.ncattrs(),'standard_name'):
                vsname = varobj.getncattr('standard_name')
            else:
                vsname = variables_values(vn)[1]
            if searchInlist(varobj.ncattrs(),'long_name'):
                vlname = varobj.getncattr('long_name')
            else:
                vlname = variables_values(vn)[4].replace('|',' ')
            if searchInlist(varobj.ncattrs(),'units'):
                vunits = varobj.getncattr('units')
            else:
                vunits = variables_values(vn)[5].replace('|',' ')

            newattr = basicvardef(newvar, vsname, vlname, vunits)
            newattr = newvar.setncattr('projection','lon lat')
            newvar[:] = varvals

# center of the trajectory
            newvar = objofile.createVariable('trj_' + vnst, 'f', ('time'),           \
              fill_value=fillValue)
            newattr = basicvardef(newvar, 'trj_' + vsname, 'value along the ' +      \
              'trajectory of '+ vnst, vunits)
            newvar[:] = statvarvals[:,0]

# variable box statistics
            ist = 0
            for statn in statnames:
                newvar = objofile.createVariable(statn + '_' + vnst, 'f', ('time'),  \
                  fill_value=fillValue)
                newattr = basicvardef(newvar, statn + '_' + vsname, vstlname[ist] +  \
                  ' the box ('+str(boxs)+'x'+str(boxs)+') of ' + vnst, vunits)
                newvar[:] = statvarvals[:,ist+1]
#                newattr = set_attributek(newvar,'_FillValue',fillValue,'npfloat')
                ist = ist + 1
        
# variable circle values
            newvar = objofile.createVariable(vnst + 'circle','f4',('time','yr','xr'),\
              fill_value=fillValue)
            if searchInlist(varobj.ncattrs(),'standard_name'):
                vsname = varobj.getncattr('standard_name')
            else:
                vsname = variables_values(vn)[1]
            if searchInlist(varobj.ncattrs(),'long_name'):
                vlname = varobj.getncattr('long_name')
            else:
                vlname = variables_values(vn)[4].replace('|',' ')
            if searchInlist(varobj.ncattrs(),'units'):
                vunits = varobj.getncattr('units')
            else:
                vunits = variables_values(vn)[5].replace('|',' ')

            newattr = basicvardef(newvar, vsname, vlname, vunits)
            newattr = newvar.setncattr('projection','lon lat')
            newvar[:] = rvarvals

# variable circle statistics
            ist = 0
            for statn in cstatnames:
                newvar = objofile.createVariable(statn + '_' + vnst, 'f', ('time'),  \
                  fill_value=fillValue)
                newattr = basicvardef(newvar, statn + '_' + vsname, vstlname[ist] +  \
                  ' the circle of radius ('+ str(circler)+') of ' + vnst, vunits)
                newvar[:] = rstatvarvals[:,ist+1]
#                newattr = set_attributek(newvar,'_FillValue',fillValue,'npfloat')
                ist = ist + 1
        else:
# Other variables
            print warnmsg
            print '  ' + fname + ": variable '" + vn + "' shape:",varobj.shape,' not'\
              + ' ready!!'
            print '    skipping variable'
            if len(varns) == 1:
                objofile.close()
                sub.call(['rm', ofile])
                print '    uniq variable! removing file and finishing program'
                quit()

        if not objofile.variables.has_key('trlon') and Nvardims == 3:
# var dimensions
            newvar = objofile.createVariable('trlon', 'f8', ('time'))
            newattr = basicvardef(newvar,'trlon','trajectory longitude',             \
              'degrees west_east')
            newvar[:] = trajvals[:,1]

            newvar = objofile.createVariable('trlat', 'f8', ('time'))
            newattr = basicvardef(newvar,'trlat','trajectory latitude',              \
              'degrees north_south')
            newvar[:] = trajvals[:,2]

            newvar = objofile.createVariable('time', 'f8', ('time'))
            newattr = basicvardef(newvar, 'time', 'time', tunits)
            newvar[:] = trajvals[:,0]

            newvar = objofile.createVariable('lon', 'f8', ('time', 'y', 'x'),        \
              fill_value=fillValue)
            newattr = basicvardef(newvar, 'longitude', 'longitude',                  \
              'degrees west_east')
            newvar[:] = lonvals

            newvar = objofile.createVariable('lat', 'f8', ('time', 'y', 'x'),        \
              fill_value=fillValue)
            newattr = basicvardef(newvar, 'latitude', 'latitude',                    \
              'degrees north_south')
            newvar[:] = latvals
           
        ivar = ivar + 1


# global attributes
    objofile.setncattr('author', 'L. Fita')
    objofile.setncattr('institution', 'Laboratire de Meteorologie Dynamique')
    objofile.setncattr('university', 'Pierre Marie Curie - Jussieu')
    objofile.setncattr('center', 'Centre National de Recherches Scientifiques')
    objofile.setncattr('city', 'Paris')
    objofile.setncattr('country', 'France')
    objofile.setncattr('script', 'nc_var_tools.py')
    objofile.setncattr('function', 'compute_tevolboxtraj')
    objofile.setncattr('version', '1.0')
    objofile.setncattr('data_file',ncfile)

    objfile.close()

    objofile.sync()
    objofile.close()

    print '  ' + fname + ': successful creation of file "' + ofile + '" !!!'

    return 

#compute_tevolboxtraj('h', 'wrfout*', 'PSFC')
#compute_tevolboxtraj('control/trajectory.dat@0,XLONG,XLAT,ZNU,Times,wrf,3,3',       \
#  '../../superstorm/control/wrfout/wrfout_d01_2001-11-09_00:00:00', 'PSFC')
#compute_tevolboxtraj('control/trajectory.dat@0,lon,lat,time,cf,5,5',                 \
#  'control/wss.nc', 'wss')
# in camelot, /bdd/PCER/workspace/lfita/etudes/FF/50sims
#compute_tevolboxtraj('001/trajectory.dat@0,XLONG,XLAT,ZNU,Times,wrf,3,3',       \
#  '001/full_concatenated.nc', 'PSFC')

def slice_variable(varobj, dimslice):
    """ Function to return a slice of a given variable according to values to its 
      dimensions
    slice_variable(varobj, dimslice)
      varobj= object wit the variable
      dimslice= [[dimname1]:[value1]|[[dimname2]:[value2], ...] pairs of dimension 
        [value]: 
          * [integer]: which value of the dimension
          * -1: all along the dimension
          * -9: last value of the dimension
          * [beg]@[end] slice from [beg] to [end]
    """
    fname = 'slice_variable'

    if varobj == 'h':
        print fname + '_____________________________________________________________'
        print slice_variable.__doc__
        quit()

    vardims = varobj.dimensions
    Ndimvar = len(vardims)

    Ndimcut = len(dimslice.split('|'))
    if Ndimcut == 0:
        Ndimcut = 1
        dimcut = list(dimslice)

    dimsl = dimslice.split('|')

    varvalsdim = []
    dimnslice = []

    for idd in range(Ndimvar):
        found = False
        for idc in range(Ndimcut):
            dimcutn = dimsl[idc].split(':')[0]
            dimcutv = dimsl[idc].split(':')[1]
            if vardims[idd] == dimcutn: 
                posfrac = dimcutv.find('@')
                if posfrac != -1:
                    inifrac = int(dimcutv.split('@')[0])
                    endfrac = int(dimcutv.split('@')[1])
                    varvalsdim.append(slice(inifrac,endfrac))
                    if endfrac > varobj.shape[idd]: 
                        print errormsg
                        print '  ' + fname + ": value for dimension '" +             \
                          dimcutn + "' is too big (", endfrac, '>',                  \
                          varobj.shape[idd],'[dimension length] ) !!'
                        quit(-1)
                    dimnslice.append(vardims[idd])
                else:
                    if int(dimcutv) == -1:
                        varvalsdim.append(slice(0,varobj.shape[idd]))
                        dimnslice.append(vardims[idd])
                    elif int(dimcutv) == -9:
                        varvalsdim.append(int(varobj.shape[idd])-1)
                    else:
                        if int(dimcutv) >= varobj.shape[idd]: 
                            print errormsg
                            print '  ' + fname + ": value for dimension '" +         \
                              dimcutn + "' is too big (", int(dimcutv), '>',         \
                              varobj.shape[idd],'[dimension length] ) !!'
                            quit(-1)
                        varvalsdim.append(int(dimcutv))
                found = True
                break
        if not found and not searchInlist(dimnslice,vardims[idd]):
            varvalsdim.append(slice(0,varobj.shape[idd]))
            dimnslice.append(vardims[idd])

    print 'orig shape:',varobj[:].shape,'sliced:',varobj[tuple(varvalsdim)].shape
    varvalues = np.squeeze(varobj[tuple(varvalsdim)])
    print 'varvalues shape:',varvalues.shape

    return varvalues, dimnslice

def operdim(varv, vardims, doper, oper):
    """ Function to operate along a series of dimensions
      varv: matrix values
      vardims: dimension names of the variable
      doper: names of the dimensions to operate
      oper: operation to perform
    >>> variable = genericNCvariable(5,4,3,2,'lon','lat','pres','time')
    >>> varv = variable[:]
    >>> vardims = variable.dimensions
    >>> doper = ['time', 'pres']
    >>> oper = 'mean'
    >>> operv, operd = operdim(varv, vardims, doper, oper)
    [[ 50.  51.  52.  53.  54.]
     [ 55.  56.  57.  58.  59.]
     [ 60.  61.  62.  63.  64.]
     [ 65.  66.  67.  68.  69.]]
    ['lat', 'lon']
    """ 
    fname = 'operdim'
    readyop = ['max', 'mean', 'mean2', 'min', 'std', 'sum']

    operslice = []
    for dn in vardims:
        if not gen.searchInlist(doper, dn):
            operslice.append(False)
        else:
            operslice.append(True)

    opereddims = []
    noper = 0
    varoper = varv.copy()
    for idim in range(len(varv.shape)):
        if operslice[idim]:
            if oper == 'max':
                varoper = np.max(varoper, axis=idim-noper)
            elif oper == 'mean':
                varoper = np.mean(varoper, axis=idim-noper)
            elif oper == 'mean2':
                varoper1 = np.mean(varoper, axis=idim-noper)
                varoper = varoper1*varoper1
            elif oper == 'min':
                varoper = np.min(varoper, axis=idim-noper)
            elif oper == 'std':
                varoper = np.std(varoper, axis=idim-noper)
            elif oper == 'sum':
                varoper = np.sum(varoper, axis=idim-noper)
            else:
                print errormsg
                print '  ' + fname + ': operation "' + oper + '" not ready!!'
                print '    operations available:', readyop
                quit(-1)
            noper = noper + 1
        else:
            opereddims.append(vardims[idim])

    operedvals = varoper
            
    return operedvals, opereddims

def operation_alongdims(ovar,dimvals,dimsoper,opkind):
    """ Function to operate along different dimensions of a variable
    operation_alongdims(ovar,dimvals,opkind)
      ovar= netCDF variable object
      dimvals= [dimname1]:[val1]|[dimdname2]:[val2]|[...[dimnameN]:[valN]]
        [value]: 
          * [integer]: which value of the dimension
          * -1: all along the dimension
          * [beg]:[end] slice from [beg] to [end]
      dimsoper= [dimname1]:[dimname2]:[...[dimnameN]] names of the dimensions along 
        which operation has to be done
      opkind= operation to perform along the dimensions with a range: max, mean, 
        mean2, min, sum
    """
    fname = 'operation_alongdims'

    if ovar == 'h':
        print fname + '_____________________________________________________________'
        print operation_alongdims.__doc__
        quit()

    vardims = ovar.dimensions
    Nvardims = len(vardims)

    cutdims = dimvals.split('|')
    Ncutdims = len(cutdims)

    if Nvardims != Ncutdims:
        print warnmsg
        print '  ' + fname + ': cutting for',Ncutdims,'but variable has:',Nvardims,  \
          '!!'
#        quit(-1)
    cutdimvals = ''
    for idv in range(Nvardims):
        found = False
        Lcutdimvals = len(cutdimvals)
        for idc in range(Ncutdims):
            if vardims[idv] == cutdims[idc].split(':')[0]:
                if Lcutdimvals > 0:
                    cutdimvals = cutdimvals + '|' + cutdims[idc]
                else:
                    cutdimvals = cutdims[idc]

                found = True
                break
        if not found:
#            print errormsg
#            print '  ' + fname + ": cutting by '",cutdims[idc].split(':')[0],        \
#              "' but variable has not it !!!"
#            print '  variable dims:',vardims
            print warnmsg
            print '  ' + fname + ": variable has dimension '",vardims[idv],          \
              "' but is not cut taking all length !!!"
            if Lcutdimvals > 0:
                cutdimvals = cutdimvals + '|' + vardims[idv] + ':-1'
            else:
                cutdimvals = vardims[idv] + ':-1'
#            quit(-1)

    slicedvar, dimslice = slice_variable(ovar, cutdimvals)

# operation
    dimnsoper = dimsoper.split(':')

    if opkind == 'mean2':
        origvar = slicedvar*slicedvar
    else:
        origvar = slicedvar.copy()

    dimsnewvar = []
    Ndimslice = len(dimslice)
    Ndimsoper = len(dimnsoper)
    noper=0
    for ids in range(Ndimslice):
        found = False
        for ido in range(Ndimsoper):
            if dimslice[ids] == dimnsoper[ido]:
                if opkind == 'max':
                    varoper = np.max(origvar, axis=ids-noper)
                elif opkind == 'mean':
                    varoper = np.mean(origvar, axis=ids-noper)
                elif opkind == 'mean2':
                    varoper = np.mean(origvar, axis=ids-noper)
                elif opkind == 'min':
                    varoper = np.min(origvar, axis=ids-noper)
                elif opkind == 'sum':
                    varoper = np.sum(origvar, axis=ids-noper)
                elif opkind == 'std':
                    varoper = np.std(origvar, axis=ids-noper)
                else:
                    print errormsg
                    print '  ' + fname + ': operation "' + opkind + '" not ready!!'
                    quit(-1)

                del(origvar)
                origvar = varoper.copy()
                noper = noper + 1
                found = True
                break
        if not found: dimsnewvar.append(dimslice[ids])

    return origvar, dimsnewvar

def var_3desc(ovar):
    """ Function to provide std_name, long_name and units from an object variable
      ovar= object variable
    """
    fname = 'var_desc'
    varattrs = ovar.ncattrs()

    if searchInlist(varattrs,'std_name'):
        stdn = ovar.getncattr('std_name')
    else:
        vvalues = variables_values(ovar._name)
        stdn = vvalues[1]

    if searchInlist(varattrs,'long_name'):
        lonn = ovar.getncattr('long_name')
    else:
        lonn = vvalues[4].replace('|',' ')

    if searchInlist(varattrs,'units'):
        un = ovar.getncattr('units')
    else:
        un = vvalues[5]

    return stdn, lonn, un

def file_oper_alongdims(values, ncfile, varn):
    """ Function to operate a file along different dimensions of a variable
    file_oper_alongdims(values, ncfile, varn)
      values= [dimvals],[dimsoper],[opkind],[dimvn]
        [dimvals]; [dimname1]@[val1]|[dimdname2]@[val2]|[...[dimnameN]@[valN]]
          [value]; 
            * [integer]: which value of the dimension
            * -1: all along the dimension
            * -9: last value along the dimension
            * [beg]:[end] slice from [beg] to [end]
            NOTE: that dimension of the variables which not appear al values will be used
        [dimsoper]; [dimname1]:[dimname2]:[...[dimnameN]] names of the dimensions along 
          which operation has to be done
        [opkind]; operation to perform along the dimensions with a range: max, mean, 
          mean2, min, sum
        [dimvn]; [varname1]:[varname2]:[...[varnameM]] variables with the values of the 
          dimensions
      ncfile= netCDF file
      varn= ',' list of variable names ('all' for all)
    """
    fname = 'file_oper_alongdims'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print file_oper_alongdims.__doc__
        quit()

    dimvals = values.split(',')[0].split('@')
    dimsoper = gen.str_list(values.split(',')[1], ':')
    operkind = values.split(',')[2]
    dimvn = values.split(',')[3].split(':')

# Operations with which when the variable dimensions will be ajusted to the file
#   the zero value along the operated dimensions will be taken
    zerodimops = ['max', 'mean', 'mean2', 'min', 'sum', 'std']

    dimsoperS = gen.numVector_String(dimsoper,', ')
    objnc = NetCDFFile(ncfile, 'r')

    if varn.find(',') != -1:
        varns = varn.split(',')
    else:
        if varn == 'all':
            varns = objnc.variables
        else:
            varns = [varn]
   
    ofile = 'file_oper_alongdims_' + operkind + '.nc'

# Getting slice dimensions
    dimslice = {}
    for dv in dimvals:
        dnv = dv.split('|')[0]
        dvv = dv.split('|')[1]
        if dvv.find(':') != -1:
            beg = int(dvv.split(':')[0])
            end = int(dvv.split(':')[1])
            dimslice[dnv] = [beg, end, 1]
        else:
            dimslice[dnv] = int(dvv)

# Creation of output file
##
    objnewnc = NetCDFFile(ofile, 'w')

    # Dimensions which should appear at the final file (from the computed variables)
    dimfinalfile = []

    print '  ' + fname + ": '" + operkind + "' with:", dimsoper, '_______'
    newNdim = 0
    newNvar = 0
    for vn in varns:
        print "    '" + vn + "' ... .. ."
        if not objnc.variables.has_key(vn):
            print errormsg
            print '  ' + fname + ': netCDF file "' + ncfile +                        \
              '" does not have variable "' + vn + '" !!'
            quit(-1)

        # Do we have to compute this variable? Only to compute that variables with 
        #   coincidence on the dimensions to operate
        ov = objnc.variables[vn]
        tocompute = False
        for vd in ov.dimensions:
            if gen.searchInlist(dimsoper, vd): tocompute = True

        if tocompute:
            # Dimensions which need to appear at the final file: that ones not opered
            #   from all opered variables
            for vd in ov.dimensions:
                if not gen.searchInlist(dimfinalfile, vd) and                        \
                 not gen.searchInlist(dimsoper, vd): dimfinalfile.append(vd)

            varslice, varsliceddims = SliceVarDict(ov,dimslice)
            varvals0 = ov[tuple(varslice)]
            varvals = np.squeeze(varvals0)

            finalvarvals, finaldims = operdim(varvals, varsliceddims, dimsoper, operkind)

            # Adding dimensions
            idn = 0
            for dn in finaldims:
                if newNdim == 0:
                    if not objnc.dimensions[dn].isunlimited():
                        objnewnc.createDimension(dn, finalvarvals.shape[idn])
                    else:
                        objnewnc.createDimension(dn, None)
                    newNdim = newNdim + 1
                else:
                    if not gen.searchInlist(objnewnc.dimensions, dn):
                        if not objnc.dimensions[dn].isunlimited():
                            objnewnc.createDimension(dn, finalvarvals.shape[idn])
                        else:
                            objnewnc.createDimension(dn, None)
                        newNdim = newNdim + 1
                idn = idn + 1

            # Adding variable
            varinf = variable_inf(ov)
            if varinf.FillValue is not None:
                newvar = objnewnc.createVariable(vn+operkind, nctype(varinf.dtype),  \
                  tuple(finaldims), fill_value=varinf.FillValue)
            else:
                newvar = objnewnc.createVariable(vn+operkind, nctype(varinf.dtype),  \
                  tuple(finaldims))
                newNvar = newNvar + 1
            newvar[:] = finalvarvals[:]

# new variable
            oldvarattr = ov.ncattrs()
    
            varname = gen.variables_values(vn)[0]
            if gen.searchInlist(oldvarattr, 'standard_name'):
                stdname = ov.getncattr('standard_name')
            else:
                stdname = gen.variables_values(vn)[1]
        
            if gen.searchInlist(oldvarattr, 'long_name'):
                lname = ov.getncattr('long_name')
            else:
                lname = gen.variables_values(vn)[4].replace('|',' ')

            if gen.searchInlist(oldvarattr, 'units'):
                uname = ov.getncattr('units')
            else:
                uname = gen.variables_values(vn)[5]
    
            newattr = basicvardef(newvar, stdname + operkind, lname + ' '+ operkind +\
              ' along ' + dimsoperS, uname)

            for idim in ov.dimensions:
                for dv in dimslice.keys():
                    if dv == idim:
                        if type(dimslice[dv]) == type([2]):
                            Sdv = gen.numVector_Sring(dimslice[dv],', ') + ', 1'
                        elif type(dimslice[dv]) == type(int(2)):
                            if dimslice[dv] == -1:
                                Sdv = str(len(objnc.dimensions[idim]))
                            else:
                                Sdv = str(dimslice[dv])
                    else:
                        Sdv = str(len(objnc.dimensions[idim]))
 
                if idim == ov.dimensions[0]:
                    origdimsS = idim + '(' + Sdv + ')'
                else:
                    origdimsS = origdimsS + ' ' + idim + '(' + Sdv + ')'

            newattr = set_attribute(newvar, 'orig_dimensions', origdimsS)
            objnewnc.sync()
    
    # Statistics of the variable dimension along the dimensions operated
    basicoper = ['min', 'max', 'mean', 'mean2', 'sum', 'std']

# operating variable dimension
    print '  ' + fname + ': Opering slice of variable dimension _______'
    for vn in dimvn:
        print "    '" + vn + "' ... .. ."
        if not objnc.variables.has_key(vn):
            print warnmsg
            print '  ' + fname + ': netCDF file "' + ncfile +                        \
              '" does not have variable "' + vn + '" skipping it !!'
            continue

        # Do we have to compute this variable?
        ov = objnc.variables[vn]
        tocompute = False
        for vd in ov.dimensions:
            if gen.searchInlist(dimfinalfile, vd): tocompute = True

        if tocompute:
            varslice, varsliceddims = SliceVarDict(ov,dimslice)
            varvals0 = ov[tuple(varslice)]
            varvals = np.squeeze(varvals0)

            finalvarvals, finaldims = operdim(varvals, varsliceddims, dimsoper, operkind)

            # Adding dimensions
            idn = 0
            for dn in finaldims:
                if newNdim == 0:
                    if not objnc.dimensions[dn].isunlimited():
                        objnewnc.createDimension(dn, finalvarvals.shape[idn])
                    else:
                        objnewnc.createDimension(dn, None)
                    newNdim = newNdim + 1
                else:
                    if not gen.searchInlist(objnewnc.dimensions, dn):
                        if not objnc.dimensions[dn].isunlimited():
                            objnewnc.createDimension(dn, finalvarvals.shape[idn])
                        else:
                            objnewnc.createDimension(dn, None)
                        newNdim = newNdim + 1
                idn = idn + 1

            # Adding variable
            varinf = variable_inf(ov)
            if varinf.FillValue is not None:
                newvar = objnewnc.createVariable(vn+operkind, nctype(varinf.dtype),  \
                  tuple(finaldims), fillValue=varinf.FillValue)
            else:
                newvar = objnewnc.createVariable(vn+operkind, nctype(varinf.dtype),  \
                  tuple(finaldims))
                newNvar = newNvar + 1
            newvar[:] = finalvarvals[:]

# new variable
            oldvarattr = ov.ncattrs()
    
            varname = gen.variables_values(vn)[0]
            if gen.searchInlist(oldvarattr, 'standard_name'):
                stdname = ov.getncattr('standard_name')
            else:
                stdname = gen.variables_values(vn)[1]
        
            if gen.searchInlist(oldvarattr, 'long_name'):
                lname = ov.getncattr('long_name')
            else:
                lname = gen.variables_values(vn)[4].replace('|',' ')

            if gen.searchInlist(oldvarattr, 'units'):
                uname = ov.getncattr('units')
            else:
                uname = gen.variables_values(vn)[5]
    
            newattr = basicvardef(newvar, stdname + operkind, lname + ' '+ operkind +\
              ' along ' + dimsoperS, uname)

            for idim in ov.dimensions:
                for dv in dimslice.keys():
                    if dv == idim:
                        if type(dimslice[dv]) == type([2]):
                            Sdv = gen.numVector_Sring(dimslice[dv],', ') + ', 1'
                        elif type(dimslice[dv]) == type(int(2)):
                            if dimslice[dv] == -1:
                                Sdv = str(len(objnc.dimensions[idim]))
                            else:
                                Sdv = str(dimslice[dv])
                    else:
                        Sdv = str(len(objnc.dimensions[idim]))
 
                if idim == ov.dimensions[0]:
                    origdimsS = idim + '(' + Sdv + ')'
                else:
                    origdimsS = origdimsS + ' ' + idim + '(' + Sdv + ')'

            newattr = set_attribute(newvar, 'orig_dimensions', origdimsS)
            objnewnc.sync()

# Statistics of the variable dimension along the dimensions operated in case 
#   dimension after operation disapears
    for vn in dimvn:
        if not objnc.variables.has_key(vn):
            print warnmsg
            print '  ' + fname + ': netCDF file "' + ncfile +                        \
              '" does not have variable "' + vn + '" skipping it !!'
            continue
        # Do we have to compute this variable?
        ov = objnc.variables[vn]
        tocompute = False
        for vd in ov.dimensions:
            if gen.searchInlist(dimsoper, vd): tocompute = True

        if tocompute:
            varslice, varsliceddims = SliceVarDict(ov,dimslice)
            varvals0 = ov[tuple(varslice)]
            varvals = np.squeeze(varvals0)

            varname = gen.variables_values(vn)[0]
            if gen.searchInlist(oldvarattr, 'standard_name'):
                stdname = ov.getncattr('standard_name')
            else:
                stdname = gen.variables_values(vn)[1]
            
            if gen.searchInlist(oldvarattr, 'long_name'):
                lname = ov.getncattr('long_name')
            else:
                lname = gen.variables_values(vn)[4].replace('|',' ')

            if gen.searchInlist(oldvarattr, 'units'):
                uname = ov.getncattr('units')
            else:
                uname = gen.variables_values(vn)[5]

            if len(varvals.shape) == 1:
                print '  ' + fname + ': Statisitcs of operated variable dimension _______'
                print "    '" + vn + "' ... .. ."
                # Statistics of the variable dimension along the dimensions operated
                newvar = objnewnc.createVariable(vn+'stats', 'f4' )
                newattr = basicvardef(newvar, stdname + 'statistics', lname +            \
                  ' statistics', uname)

                newattr = set_attributek(newvar, 'Nvalues', len(varvals), 'I')
                for op in basicoper:
                    finalvarv, finalds = operdim(varvals,varsliceddims,dimsoper,op)
                    newattr = set_attributek(newvar, op, finalvarv, 'R')
                objnewnc.sync()

# Including operation dimensions on the new slice for the variables dimension
#   but, which value along the operated dimension should be taken?
    sliceaddvars = dimslice
    if gen.searchInlist(zerodimops, operkind):
        dimsliceval = 0

    for cdn in dimsoper:
        sliceaddvars[cdn] = dimsliceval

# slicing variable dimension
    print '  ' + fname + ': Adding slice of variable dimension _______'
    for vn in dimvn:
        print "    '" + vn + "' ... .. ."
        if not objnc.variables.has_key(vn):
            print warnmsg
            print '  ' + fname + ': netCDF file "' + ncfile +                        \
              '" does not have variable "' + vn + '" skippping it!!'
            continue

        # Do we have to add this dimension-variable? (only that ones with same 
        #   dimensions as desired variable)
        ov = objnc.variables[vn]
        toadd = False
        for vd in ov.dimensions:
            if gen.searchInlist(dimfinalfile, vd): toadd = True
   
        if toadd:
            varinf = variable_inf(ov)
            varslice, varsliceddims = SliceVarDict(ov,sliceaddvars)
            varvals0 = ov[tuple(varslice)]
            varvals = np.squeeze(varvals0)

            for idv in range(len(varvals.shape)):
                if not gen.searchInlist(objnewnc.dimensions, varsliceddims[idv]):
                    newdim = objnewnc.createDimension(varsliceddims[idv],            \
                      varvals.shape[idv])

            newvar = objnewnc.createVariable(vn, nctype(varinf.dtype),               \
              tuple(varsliceddims))
            newvar[:] = varvals

            for attrn in varinf.attributes:
                attrv = ov.getncattr(attrn)
                newattr = set_attribute(newvar, attrn, attrv)
            objnewnc.sync()

# global attributes
    objnewnc.setncattr('author', 'L. Fita')
    newattr = set_attributek(objnewnc, 'institution', unicode('Laboratoire de M' +   \
      unichr(233) + 't' + unichr(233) + 'orologie Dynamique'), 'U')
    objnewnc.setncattr('university', 'Pierre Marie Curie - Jussieu')
    objnewnc.setncattr('center', 'Centre National de Recherches Scientifiques')
    objnewnc.setncattr('city', 'Paris')
    objnewnc.setncattr('country', 'France')
    objnewnc.setncattr('script', 'nc_var_tools.py')
    objnewnc.setncattr('function', 'file_oper_alongdims')
    objnewnc.setncattr('version', '1.0')
    objnewnc.setncattr('data_file', ncfile)

    gorigattrs = objnc.ncattrs()
    for attr in gorigattrs:
        attrv = objnc.getncattr(attr)
        atvar = set_attribute(objnewnc, attr, attrv)

    objnc.close()

    objnewnc.sync()
    objnewnc.close()

    print '  ' + fname + ': successful creation of file "' + ofile + '" !!!'

    return 

def file_oper_alongdims_old(values, ncfile, varn):
    """ Function to operate a file along different dimensions of a variable
    file_oper_alongdims(values, ncfile, varn)
      values= [dimvals],[dimsoper],[opkind],[dimvn]
        [dimvals]; [dimname1]:[val1]|[dimdname2]:[val2]|[...[dimnameN]:[valN]]
          [value]; 
            * [integer]: which value of the dimension
            * -1: all along the dimension
            * [beg]:[end] slice from [beg] to [end]
        [dimsoper]; [dimname1]:[dimname2]:[...[dimnameN]] names of the dimensions along 
          which operation has to be done
        [opkind]; operation to perform along the dimensions with a range: max, mean, 
          mean2, min, sum
        [dimvn]; [varname1]:[varname2]:[...[varnameM]] variables with the values of the 
          dimensions of the resultant operation
      ncfile= netCDF file
      varn= ',' list of variable names ('all' for all)
    """

    fname = 'file_oper_alongdims'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print file_oper_alongdims.__doc__
        quit()

    dimvals = values.split(',')[0]
    dimsoper = values.split(',')[1]
    operkind = values.split(',')[2]
    dimvn = values.split(',')[3]

    dimsoperS = gen.numVector_String(dimsoper.split(':'),', ')
    objnc = NetCDFFile(ncfile, 'r')

    if varn.find(',') != -1:
        varns = varn.split(',')
    else:
        if varn == 'all':
            varns = objnc.variables
        else:
            varns = [varn]
   
    ofile = 'file_oper_alongdims_' + operkind + '.nc'

    if dimsoper.find(':') != -1:
        dimstouse = dimsoper.split(':')
    else:
        dimstouse = [dimsoper]

# Creation of output file
##

    objnewnc = NetCDFFile(ofile, 'w')

    print '  ' + fname + ": '" + operkind + "' with:",dimsoper,'_______'
    for vn in varns:
        print "'" + vn + "' ... .. ."

        if not objnc.variables.has_key(vn):
            print errormsg
            print '  ' + fname + ': netCDF file "' + ncfile +                        \
              '" does not have variable "' + vn + '" !!!!'
            quit(-1)

# Variable
        objvar = objnc.variables[vn]

        allfound = True
        for idimt in dimstouse:
            if not gen.searchInlist(objvar.dimensions, idimt):
                allfound = False
                break

        if not allfound:
            print warnmsg
            print '  ' + fname + ": variable '" + vn + "' (", objvar.dimensions,     \
              ') does not have all the equired dimensions:', dimstouse, '!!'
            print '    skipping it'
            
        else:
            newvarv, newvardimns=operation_alongdims(objvar,dimvals,dimsoper,operkind)

# Dimensions
            for idim in range(len(newvardimns)):
                objdim = objnc.dimensions[newvardimns[idim]]
                if not objnewnc.dimensions.has_key(newvardimns[idim]):
                    if objdim.isunlimited():
                        objnewnc.createDimension(newvardimns[idim], None)
                    else:
                        objnewnc.createDimension(newvardimns[idim], len(objdim))

# Variables with dimension values
            vardims = dimvn.split(':')
            Nvardims = len(vardims)
            for ivd in range(Nvardims):
                vdname = vardims[ivd]
                if not objnewnc.variables.has_key(vdname) and                        \
                  objnc.variables.has_key(vdname):
                    objvdim = objnc.variables[vdname]
                    coinvardims = objvdim.dimensions

                    # Introducing only that variable dimensions with coincident dims
                    toadd = False
                    for vdn in coinvardims:
                        if gen.searchInlist(newvardimns, vdn): toadd = True

                    vdimtype = objvdim.dtype
                    if toadd:
                        newdvarv, newdvards=operation_alongdims(objvdim,dimvals,     \
                          dimsoper,operkind)

# Introducing only that dimension variables with any dimension after the operation
                        if len(newdvards) > 0:
                            newvar = objnewnc.createVariable(vdname, vdimtype,       \
                              tuple(newdvards))
                            newvar[:] = newdvarv
                            dimvattrs = objvdim.ncattrs()
                            for attrn in dimvattrs:
                                attrv = objvdim.getncattr(attrn)
                                newattr = set_attribute(newvar,attrn,attrv)

                            newattr = set_attribute(newvar, 'operation', operkind +  \
                              ' along ' + dimsoperS)

# new variable
            oldvarattr = objvar.ncattrs()
    
            varname = gen.variables_values(vn)[0]
            if gen.searchInlist(oldvarattr, 'standard_name'):
                stdname = objvar.getncattr('standard_name')
            else:
                stdname = gen.variables_values(vn)[1]
        
            if gen.searchInlist(oldvarattr, 'long_name'):
                lname = objvar.getncattr('long_name')
            else:
                lname = gen.variables_values(vn)[4].replace('|',' ')

            if gen.searchInlist(oldvarattr, 'units'):
                uname = objvar.getncattr('units')
            else:
                uname = gen.variables_values(vn)[5]
    
            newvar = objnewnc.createVariable(varname + operkind, 'f4', 
              tuple(newvardimns))
            newattr = basicvardef(newvar, stdname + operkind, lname + ' '+ operkind +\
              ' along ' + dimsoperS, uname)

            newvar[:] = newvarv
            for idim in range(len(objvar.shape)):
                if dimvals.find('|') != -1:
                    dimn = dimvals.split('|')[idim].split(':')[0]
                else:
                    dimn = dimvals.split(':')[0]
                dimv = '{:d}'.format(len(objnc.dimensions[dimn]))
                if idim == 0:
                    origdimsS = dimn + '(' + dimv + ')'
                else:
                    origdimsS = origdimsS + ' ' + dimn + '(' + dimv + ')'

            newattr = set_attribute(newvar, 'orig_dimensions', origdimsS)
    
# global attributes
    objnewnc.setncattr('author', 'L. Fita')
    objnewnc.setncattr('institution', 'Laboratire de Meteorologie Dynamique')
    objnewnc.setncattr('university', 'Pierre Marie Curie - Jussieu')
    objnewnc.setncattr('center', 'Centre National de Recherches Scientifiques')
    objnewnc.setncattr('city', 'Paris')
    objnewnc.setncattr('country', 'France')
    objnewnc.setncattr('script', 'nc_var_tools.py')
    objnewnc.setncattr('function', 'file_oper_alongdims')
    objnewnc.setncattr('version', '1.0')
    objnewnc.setncattr('data_file', ncfile)

    gorigattrs = objnc.ncattrs()
    for attr in gorigattrs:
        attrv = objnc.getncattr(attr)
        atvar = set_attribute(objnewnc, attr, attrv)

    objnc.close()

    objnewnc.sync()
    objnewnc.close()

    print '  ' + fname + ': successful creation of file "' + ofile + '" !!!'

    return 

#file_oper_alongdims('Time:-1|bottom_top:-1|south_north:-1|west_east:-1,bottom_top,sum,Times:XLAT:XLONG', 
#  '/home/lluis/PY/wrfout_d01_2001-11-11_00:00:00.tests', 'QVAPOR')

#file_oper_alongdims('time:-1|z:-1|x:-1|y:-1,time:y,mean,pressure:lat', '/home/lluis/etudes/WRF_LMDZ/WaquaL/WRF_LMDZ/AR40/vertical_interpolation_WRFp.nc', 'WRFt')

def WRF_d0Nref(values, geofold):
    """ Function for the generation of an extra WRF domain from a given one 
    field_stats(values, ncfile, varn)
      [values]= [namelist],[minLON],[minLAT],[maxLON],[maxLAT],[Ndomref],[factor],[geogres]
        [namelist]: namelist.wps to use
        [minLON],[minLAT]: minimum longitude and latitude
        [maxLON],[maxLAT]: maximum longitude and latitude
        [Ndomref]: domain reference number
        [factor]: resolution factor with respect d01
        [geogres]: which topography resolution to use
      [geofold]= folder where to found the geo_em.d0[N-1].nc file
    """

    fname='WRF_d0Nref'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print WRF_d0Nref.__doc__
        quit()

    expectargs = '[namelist],[minLON],[minLAT],[maxLON],[maxLAT],[Ndomref],[factor],'
    expectargs = expectargs + '[geogres]'
 
    check_arguments(fname,values,expectargs,',')

    namelist = values.split(',')[0]
    minLON = np.float(values.split(',')[1])
    minLAT = np.float(values.split(',')[2])
    maxLON = np.float(values.split(',')[3])
    maxLAT = np.float(values.split(',')[4])
    Ndomref = int(values.split(',')[5])
    factor = int(values.split(',')[6])
    geogres = values.split(',')[7]

    onml = 'namelist.wps_d0' + str(Ndomref+1)

# Namelist variables to which new value is a copy of the last one
    repeatvalue = ['start_date' ,'end_date']
# Namelist variables to which value is increased by 1 (single value)
    add1 = ['max_dom']
# Namelist variables to which new value is an increase by 1 of the last one
    add1value = ['parent_id']

#    ncfile = geofold + '/geo_em.d' + zeros(Ndomref,2) + '.nc'
    ncfile = geofold + '/geo_em.d0' + str(Ndomref) + '.nc'

    if not os.path.isfile(ncfile):
        print errormsg
        print '  ' + fname + ': geo_em file "' + ncfile + '" does not exist !!'
        quit(-1)    

    ncobj = NetCDFFile(ncfile, 'r')

    nlon='XLONG_M'
    nlat='XLAT_M'

    lonobj = ncobj.variables[nlon]
    latobj = ncobj.variables[nlat]

    lon = lonobj[0,:,:]
    lat = latobj[0,:,:]

    ncobj.close()

    diffmin = np.sqrt((lon - minLON)**2. + (lat - minLAT)**2.)
    diffmax = np.sqrt((lon - maxLON)**2. + (lat - maxLAT)**2.)

    posdiffmin = index_mat(diffmin,np.min(diffmin))
    posdiffmax = index_mat(diffmax,np.min(diffmax))
#    print 'min vals. min:',np.min(diffmin),'max:',np.min(diffmax)

#    print 'min:', minLON, ',', minLAT, ':', posdiffmin, '.', lon[tuple(posdiffmin)], \
#      ',', lat[tuple(posdiffmin)]
#    print 'max:', maxLON, ',', maxLAT, ':', posdiffmax, '.', lon[tuple(posdiffmax)], \
#      ',', lat[tuple(posdiffmax)]

    print '  ' + fname +': coordinates of the SW corner:', posdiffmin, ' NE corner:',\
      posdiffmax

    nmlobj = open(namelist, 'r')
    onmlobj = open(onml, 'w')
    for line in nmlobj:
        listline = reduce_spaces(line)
        nvals = len(listline)
        if nvals > 0:
            if searchInlist(add1,listline[0]):
                nmlval = int(listline[nvals-1].replace(',','')) + 1
                onmlobj.write(' ' + listline[0] + ' = ' + str(nmlval) + ',\n')
            elif searchInlist(add1value,listline[0]):
                if Ndomref == 1:
                    nmlval = 1
                else:
                    nmlval = int(listline[nvals-1].replace(',','')) + 1   
                onmlobj.write(' ' + listline[0] + ' = ' +                            \
                  numVector_String(listline[2:nvals+1], ' ') + ' ' +str(nmlval)+',\n')
            elif searchInlist(repeatvalue,listline[0]):
                nmlval = listline[nvals-1]
                onmlobj.write(' ' + listline[0] + ' = ' +                            \
                  numVector_String(listline[2:nvals+1],' ') + ' ' + str(nmlval)+'\n')
            elif listline[0] == 'parent_grid_ratio':
                nmlval = factor
                onmlobj.write(' ' + listline[0] + ' = ' +                            \
                  numVector_String(listline[2:nvals+1],' ') + ' ' + str(nmlval)+',\n')
            elif listline[0] == 'i_parent_start':
                nmlval = posdiffmin[1] - 10
                onmlobj.write(' ' + listline[0] + ' = ' +                            \
                  numVector_String(listline[2:nvals+1],' ') + ' ' + str(nmlval)+',\n')
            elif listline[0] == 'j_parent_start':
                nmlval = posdiffmin[0] - 10
                onmlobj.write(' ' + listline[0] + ' = ' +                            \
                  numVector_String(listline[2:nvals+1],' ') + ' ' + str(nmlval)+',\n')
            elif listline[0] == 'e_we':
                nmlval = (posdiffmax[1] - posdiffmin[1] + 20)*factor
                nmlval = nmlval + np.mod(nmlval,factor) + 1
                onmlobj.write(' ' + listline[0] + ' = ' +                            \
                  numVector_String(listline[2:nvals+1],' ') + ' ' + str(nmlval)+',\n')
            elif listline[0] == 'e_sn':
                nmlval = (posdiffmax[0] - posdiffmin[0] + 20)*factor
                nmlval = nmlval + np.mod(nmlval,factor) + 1
                onmlobj.write(' ' + listline[0] + ' = ' +                            \
                  numVector_String(listline[2:nvals+1],' ') + ' ' + str(nmlval)+',\n')
            elif listline[0] == 'geog_data_res':
                nmlval = "'" + geogres + "'"
                onmlobj.write(' ' + listline[0] + ' = ' +                            \
                  numVector_String(listline[2:nvals+1],' ') + ' ' + str(nmlval)+',\n')
            else:
                onmlobj.write(line)
        else:
            onmlobj.write('\n')

    nmlobj.close()
    onmlobj.close()

    print fname + ": successfully written new namelist '" + onml + "' !!"

    return

def WRF_CFtime_creation(values, ncfile, varn):
    """ Function to add a CF-convention time unit in a WRF file
    WRF_CFtime_creation(values, ncfile, varn)
      [values]= [refdate],[units] 
        [refdate]: reference date to compute the times in 
          [YYYY][MM][DD][HH][MI][SS] format
        [units]: time units to use: 'days','hours','minutes','seconds'
      [ncfile]= WRF file to add the CF-convention time variable
      [varn]= name of the variable time to add
    """
    fname='WRF_CFtime_creation'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print WRF_CFtime_creation.__doc__
        quit()

    refdate=values.split(',')[0]
    tunitsval=values.split(',')[1]

    wrfnc = NetCDFFile(ncfile, 'a')

    if wrfnc.variables.has_key(varn):
        print warnmsg
        print '  ' + fname + ": WRF file '" + ncfile + "' already has variable '" +  \
          varn + "' !!!"
        print '    overwritting values'

    timeobj = wrfnc.variables['Times']
    timewrfv = timeobj[:]

    yrref=refdate[0:4]
    monref=refdate[4:6]
    dayref=refdate[6:8]
    horref=refdate[8:10]
    minref=refdate[10:12]
    secref=refdate[12:14]

    refdateS = yrref + '-' + monref + '-' + dayref + ' ' + horref + ':' + minref +   \
      ':' + secref

    dt = timeobj.shape[0]
    cftimes = np.zeros((dt), dtype=np.float)

    for it in range(dt):
        wrfdates = gen.datetimeStr_conversion(timewrfv[it,:],'WRFdatetime',          \
          'matYmdHMS')
        cftimes[it] = gen.realdatetime1_CFcompilant(wrfdates, refdate, tunitsval)

    tunits = tunitsval + ' since ' + refdateS

# Create dimension
    if not wrfnc.dimensions.has_key('time'):
        newdim = wrfnc.createDimension('time', None)

    if wrfnc.variables.has_key(varn):
        newvar = wrfnc.variables[varn]
    else:
        newvar = wrfnc.createVariable('time','f8',('time'))

    newattr = basicvardef(newvar, 'time','time',tunits)
    newvar[:] = cftimes
    newattr = set_attribute(newvar, 'calendar', 'standard')
    newattr = set_attribute(newvar, 'axis', 'T')
    newattr = set_attribute(newvar, '_CoordinateAxisType', 'Time')

    wrfnc.sync()
    wrfnc.close()

    return

#WRF_CFtime_creation('19491201000000,hours', 'wrfout_d01_1995-01-15_00:00:00', 'time')

def WRF_CFxtime_creation(values, ncfile, varn):
    """ Function to add a CF-convention time unit in a WRF file using variable 'XTIME'
    WRF_CFxtime_creation(values, ncfile, varn)
      [values]= [refdate],[units] 
        [refdate]: reference date to compute the times in 
          [YYYY][MM][DD][HH][MI][SS] format
        [units]: time units to use: 'days','hours','minutes','seconds'
      [ncfile]= WRF file to add the CF-convention time variable
      [varn]= name of the variable time to add
    """
    fname='WRF_CFxtime_creation'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print WRF_CFxtime_creation.__doc__
        quit()

    refdate=values.split(',')[0]
    tunitsval=values.split(',')[1]

    wrfnc = NetCDFFile(ncfile, 'a')

    if  not wrfnc.variables.has_key('XTIME'):
        print errormsg
        print '  ' + fname + ": WRF file '" + ncfile + "' does not have variable '" +\
          "XTIME' !!"
        quit(-1)

    if wrfnc.variables.has_key(varn):
        print warnmsg
        print '  ' + fname + ": WRF file '" + ncfile + "' already has variable '" +  \
          varn + "' !!!"
        print '    over-writting values'

    if not searchInlist(wrfnc.ncattrs(), 'SIMULATION_START_DATE'):
        print errormsg
        print '  ' + fname + ": WRF file '" + ncfile + "' does not have attribute '"+\
          "'SIMULATION_START_DATE' !!!"
        quit(-1)
 
    startdate = wrfnc.SIMULATION_START_DATE

    timeobj = wrfnc.variables['XTIME']
    timewrfv = timeobj[:]

    yrref=refdate[0:4]
    monref=refdate[4:6]
    dayref=refdate[6:8]
    horref=refdate[8:10]
    minref=refdate[10:12]
    secref=refdate[12:14]

    refdateS = yrref + '-' + monref + '-' + dayref + '_' + horref + ':' + minref +   \
      ':' + secref

    dt = timeobj.shape[0]
    cftimes = np.zeros((dt), dtype=np.float)

    for it in range(dt):
        wrfdates = datetimeStr_conversion(str(timewrfv[it]) +',minutes since ' +     \
          startdate, 'cfTime', 'matYmdHMS') 
        cftimes[it] = realdatetime1_CFcompilant(wrfdates, refdate, tunitsval)

    tunits = tunitsval + ' since ' + refdateS

    if wrfnc.variables.has_key('time'):
        newvar = wrfnc.variables['time']
    else:
        newvar = wrfnc.createVariable('time','f4',('Time'))

    newattr = basicvardef(newvar, 'time','time',tunits)
    newvar[:] = cftimes
    newattr = set_attribute(newvar, 'calendar', 'standard')

    wrfnc.sync()
    wrfnc.close()

    return

def insert_variable(onc, varn, varv, vardims, varvdims, onewnc):
    """ Function to insert a variable in an existing file
    insert_variable(onc, varn, varv, vardims, onewnc)
      [onc]= object of the original file 
      [varn]= name of the variable
      [varv]= values of the variable
      [vardims]= dimension names of the variable
      [varvdims]= name of the variables with the values of the dimensions
      [onewnc]= object of the new file
    """

    fname = 'insert_variable'

    if onc == 'h':
        print fname + '_____________________________________________________________'
        print insert_variable.__doc__
        quit()

    ininewncdims = onewnc.dimensions
    ininewncvars = onewnc.variables

# Creation of dimensions
    for idim in vardims:
        if not ininewncdims.has_key(idim):
            if not onc.dimensions.has_key(idim):
                print errormsg
                print '    ' + fname + ': initial file does not have dimension: "' + \
                  idim + '"'
                quit(-1)
            else:
                refdimv = onc.dimensions[idim]
                if refdimv.isunlimited():
                    dimsize = None
                else:
                    dimsize = len(refdimv)

            onewnc.createDimension(idim,  dimsize)

# Variables with dimension values
    for ivdim in varvdims:
        if not ininewncvars.has_key(ivdim):
            if not onc.variables.has_key(ivdim):
                print errormsg
                print '    ' + fname + ': initial file does not have variable: "' + \
                  ivdim + '"'
                quit(-1)
            else:
                refvdimv = onc.variables[ivdim]
                refvdimvals = refvdimv[:]

            for dmn in refvdimv.dimensions:
                if not onewnc.dimensions.has_key(dmn):
                    print 'dmn:',dmn
                    if onc.dimensions[dmn].isunlimited():
                        newdim = onewnc.createDimension(dmn, None )
                    else:
                        newdim = onewnc.createDimension(dmn,len(onc.dimensions[dmn]))

            newvar = onewnc.createVariable(ivdim, refvdimv.dtype,                    \
              (refvdimv.dimensions))
            varattrs = refvdimv.ncattrs()
            newvar[:] = refvdimvals
            for attrn in varattrs:
                attrv = refvdimv.getncattr(attrn)
                newattr = set_attribute(newvar, attrn, attrv)

# Variable
    varvalues = gen.variables_values(varn)
    for st in gen.statsurname:
        if varn.find(st) > -1:
            print '    '+ fname + ": varibale '" + varn + "' with a " +              \
              "statistical surname: '",st,"' !!"
            varvalues[0] = varn
            break

    if onewnc.variables.has_key(varvalues[0]):
        print warnmsg
        print '  ' + fname + ": file already has variable '" + varvalues[0] + "' !!"
        print '    re-writting values'
        newvar = onewnc.variables[varvalues[0]]
    else:
        newvar = onewnc.createVariable(varvalues[0], 'f4', (vardims))
        newattr = basicvardef(newvar, varvalues[1], varvalues[4].replace('|',' '),   \
          varvalues[5])
    print '  ' + fname + ': shape; newvar',newvar.shape,'varv:',varv.shape
    newvar[:] = varv

    return

def var_dim_dimv(dimvar, dimns, dimvns):
    """ Function to bring back which variables with the values should be use for a 
    given variable
    var_dim_dimv(ovar, dimns, dimvns)
      [dimvar]= list of the dimensions of the variable
      [dimns]= names of the list of available dimensions
      [dimvns]= correspondant name of variables with the values for the dimensions
    >>> dimsvar = ['t', 'y', 'x']
    >>> dimnames = ['t', 'z', 'l', 'y' , 'x']
    >>> dimvarnames =  ['time', 'pressure', 'soil_levels', 'lat' ,' lon']
    >>> var_dim_dimv(dimsvar, dimnames, dimvarnames)
    ['time', 'lat', ' lon']
    """
    fname = 'var_dim_dimv'

    if dimvar == 'h':
        print fname + '_____________________________________________________________'
        print var_dim_dimv.__doc__
        quit()

    dimvvar = list(dimvns)

    Ndimvar = len(dimvar)
    Ndimns = len(dimns)

    for indimv in range(Ndimns):
        for indima in range(Ndimvar):
            found = False
            if dimns[indimv] == dimvar[indima]:
                found = True
                break
        if not found: dimvvar.remove(dimvns[indimv])

    return dimvvar

def WRF_CFlonlat_creation(values, ncfile, varn):
    """ Function to add a CF-convention longitude/latitude variables in a WRF file
    WRF_CFlon_creation(values, ncfile, varn)
      [values]= [lonname],[latname] names of the variables to add (standard names 
        'longitude', 'latitude')
      [ncfile]= WRF file to add the CF-convention time variable
      [varn]= [lonname],[latname] name of the variables to use
    """
    fname='WRF_CFlonlat_creation'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print WRF_CFlonlat_creation.__doc__
        quit()

    cflonn = values.split(',')[0]
    cflatn = values.split(',')[1]

    wlonn = varn.split(',')[0]
    wlatn = varn.split(',')[1]

    wrfnc = NetCDFFile(ncfile, 'a')

    if not gen.searchInlist(wrfnc.variables.keys(),wlonn):
        print errormsg
        print '  ' + fname + ": file '" + ncfile + "' has not lon variable '" +      \
          wlonn + "' !!!"
        quit(-1)

    if  not gen.searchInlist(wrfnc.variables.keys(),wlatn):
        print errormsg
        print '  ' + fname + ": file '" + ncfile + "' has not lat variable '" +      \
          wlatn + "' !!!"
        quit(-1)

    if  not gen.searchInlist(wrfnc.dimensions.keys(),'west_east'):
        print errormsg
        print '  ' + fname + ": file '" + ncfile + "' has not 'west_east' dimension !!!"
        quit(-1)

    if  not gen.searchInlist(wrfnc.dimensions.keys(),'south_north'):
        print errormsg
        print '  ' + fname + ": file '" + ncfile + "' has not 'south_north' dimension !!!"
        quit(-1)

    lonobj = wrfnc.variables[wlonn]
    lonv = lonobj[:]

    latobj = wrfnc.variables[wlatn]
    latv = latobj[:]

    if len(lonv.shape) == 3:
        cflons = np.zeros((lonv.shape[1],lonv.shape[2]), dtype=np.float)
        cflons = np.where(lonv[0,:,:] < 0., lonv[0,:,:] + 360., lonv[0,:,:])
        cflats = np.zeros((latv.shape[1],latv.shape[2]), dtype=np.float)
        cflats = latv[0,:,:]
        dimx = lonv.shape[2]
        dimy = lonv.shape[1]
    elif len(lonv.shape) == 2:
        cflons = np.zeros((lonv.shape), dtype=np.float)
        cflons = np.where(lonv < 0., lonv + 360., lonv)
        cflats = latv
        dimx = lonv.shape[1]
        dimy = lonv.shape[0]
    elif len(lonv.shape) == 1:
        cflons = np.zeros((lonv.shape), dtype=np.float)
        cflons = np.where(lonv < 0., lonv + 360., lonv)
        cflats = latv
        dimx = lonv.shape[0]
        dimy = latv.shape[0]
    else:
        print errormsg
        print '  ' + fname + ": original longitude variable '" + varn + "' shape:" + \
          lonv.shape + "not ready !!!"
        quit(-1)

#    if len(lonv.shape) == 3:
#        for ix in range(lonv.shape[2]):
#            print ix, lonv[0,10,ix], cflons[10,ix]
#    elif len(lonv.shape) == 2:
#        for ix in range(lonv.shape[1]):
#            print ix, lonv[10,ix], cflons[10,ix]

    # Creation of CF-dimensions
    if not wrfnc.dimensions.has_key('lon'):
        newdim = wrfnc.createDimension('lon', dimx)
    if not wrfnc.dimensions.has_key('lat'):
        newdim = wrfnc.createDimension('lat', dimy)

    if wrfnc.variables.has_key(cflonn):
        print warnmsg
        print '  ' + fname + ": file '" + ncfile + "' already has variable '" +      \
          cflonn + "' !!!"
        print '    over-writting values'
        newvar = wrfnc.variables[cflonn]
    else:
        newvar = wrfnc.createVariable(cflonn,'f8',('lat','lon'))
    newattr = basicvardef(newvar, 'longitude','Longitude','degrees_East')
    newvar[:] = cflons
    newattr = set_attribute(newvar, 'axis', 'X')
    newattr = set_attribute(newvar, '_CoordinateAxisType', 'Lon')

    if wrfnc.variables.has_key(cflatn):
        print warnmsg
        print '  ' + fname + ": file '" + ncfile + "' already has variable '" +      \
          cflatn + "' !!!"
        print '    over-writting values'
        newvar = wrfnc.variables[cflatn]
    else:
        newvar = wrfnc.createVariable(cflatn,'f8',('lat','lon'))
    newattr = basicvardef(newvar, 'latitude','Latitude','degrees_North')
    newvar[:] = cflats
    newattr = set_attribute(newvar, 'axis', 'Y')
    newattr = set_attribute(newvar, '_CoordinateAxisType', 'Lat')

    wrfnc.sync()
    wrfnc.close()

    return

#WRF_CFlon_creation('longitude', 'wrfout_d01_1980-03-01_00:00:00_Time_B0-E48-I1.nc', 'XLONG')

def dimVar_creation(values, ncfile):
    """ Function to add a 1D variable with the size of a given dimension in a file
    dimVar_creation(values, ncfile)
      [values]= [dimname] name of the dimesion to use
      [ncfile]= file to add the variable
    """
    fname='dimVar_creation'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print dimVar_creation.__doc__
        quit()

    ncobj = NetCDFFile(ncfile, 'a')

    varn = 'varDIM' + values

    if not searchInlist(ncobj.dimensions.keys(),values):
        print errormsg
        print '  ' + fname + ": file '" + ncfile + "' has not '" + values +          \
          "' dimension !!"
        quit(-1)

    dimsize = len(ncobj.dimensions[values])

    if ncobj.variables.has_key(varn):
        print warnmsg
        print '  ' + fname + ": file '" + ncfile + "' already has variable '" +      \
          varn + "' !!!"
        print '    over-writting values'
        newvar = ncobj.variables[varn]
    else:
        newvar = ncobj.createVariable(varn,'f4',(values))
    newattr = basicvardef(newvar, varn,"variable from '" +values+ "' dimension" ,'-')
    newvar[:] = np.arange(dimsize)*1.

    ncobj.sync()
    ncobj.close()

    print fname + ": successfull creation of variable '" + varn + "' !!"

    return

#dimVar_creation('bottom_top', 'wrfout_d01_1979-12-01_00:00:00_south_north_B3-E3-I1_west_east_B26-E26-I1.nc')

def netcdf_fold_concatenation_HMT(values, ncfile, varn):
    """ Function to concatenate netCDF files in a given folder for a given set of variables 
      giving Header, Middle, Tail for the name files
    netcdf_fold_concateation(values, ncfile, varn)
      [values]= [fold],[dimname]
        [fold]: folder with the location of the netCDF files
        [dimname]: dimension along which files should be concatenated
        [tail]: tail of the files to concatenate (optional)
      [ncfile]= [header],[middle],[tail]
        [header] = header of the name of the files to concatenate [ncfile]*[middle]*[tail]
        [middle] = middle of the name of the files to concatenate [ncfile]*[middle]*[tail]
        [tail] = tail of the name of the files to concatenate [ncfile]*[middle]*[tail]

      [varn]= ',' separated list of variables to concatenate 
          [var1],[var2],[...[varN]] or 'all' for all variables
    """
    import subprocess as sub
    fname='netcdf_fold_concatenate_HMT'

    ofile = 'netcdf_fold_concatenated_HMT.nc'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print netcdf_fold_concatenation_HMT.__doc__
        quit()

    fold = values.split(',')[0]
    condim = values.split(',')[1]

    HMT = ncfile.split(',')
    confiles = gen.files_folder_HMT(fold, HMT[0], HMT[1], HMT[2])
    Nfiles = len(confiles)

    print '  ' + fname +': concatenating:', Nfiles, 'files'
    if Nfiles == 0:
        print errormsg
        print '  ' + fname + ": there are no files as '" + fold + '/' + ncfile + "*' !!"
        quit(-1)
    print confiles

# Opening all files
    ncobjs = []
    for filen in confiles:
        print 'charging: ',filen
        ncobjs.append(NetCDFFile(fold + '/' + filen, 'r'))

# Looking for the new length of the concatenation dimension
    if not ncobjs[0].dimensions.has_key(condim):
        print errormsg
        print '  ' + fname + ": files do not have dimensions '" + condim + "' !!!"
        quit(-1)

    totcondim = 0
    for ifile in range(Nfiles):
        ncobj = ncobjs[ifile]
        totcondim = totcondim + len(ncobjs[ifile].dimensions[condim])

    print "total concatenated dimension '" + condim + "': ", totcondim

# concatenated file creation
##
    newnc = NetCDFFile(ofile, 'w')

# dimension creation 
##
    if ncobjs[0].dimensions[condim].isunlimited():
        newnc.createDimension(condim, None)
    else:
        newnc.createDimension(condim, totcondim)
# Fake variable for the dimension
    print 'condim:',condim
    dims = []
    dims.append(condim)
    newvar = newnc.createVariable('int' + condim, 'i4', tuple(dims))
    newvar[:] = range(totcondim)

# Looping variables
##
    if varn == 'all':
        desvars = ncobjs[0].variables
    else:
        desvars = varn.split(',')

    for dvar in desvars:
        if not ncobjs[0].variables.has_key(dvar):
            print errormsg
            print '  ' + fname + ": files do not have variable '" + dvar + "' !!!"
            quit(-1)

    for dvar in desvars:
        print '  ' + fname + ": concatenating '" + dvar + "'..."
        objvar = ncobjs[0].variables[dvar]
# creation of dimensions
        vardims = objvar.dimensions
        for ndim in vardims:
            if not newnc.dimensions.has_key(ndim):
                vardimo = ncobjs[0].dimensions[ndim]
                if vardimo.isunlimited():
                    newnc.createDimension(ndim, None)
                else:
                    newnc.createDimension(ndim, len(vardimo))
# creation of variable
        kvar = objvar.dtype
        newvar = newnc.createVariable(dvar, kvar, objvar.dimensions)
        varattrs = objvar.ncattrs()
        for atr in varattrs:
            attrv = objvar.getncattr(atr)
            newattr = set_attribute(newvar, atr, attrv)

# variable values
#        vartotv = np.zeros((newvar.shape), dtype=kvar)
        objvar = ncobjs[0].variables[dvar]

        if gen.searchInlist(list(objvar.dimensions),condim):
            begslicetot = 0
            for ifile in range(Nfiles):
                slicevartot = []
                if ncobjs[ifile].variables.has_key(dvar):
                    objvar = ncobjs[ifile].variables[dvar]
                    for dimn in objvar.dimensions:
                        ldimfile = len(ncobjs[ifile].dimensions[dimn])
                        if dimn == condim:
                            slicevartot.append(slice(begslicetot,begslicetot+ldimfile))
                            begslicetot = begslicetot + ldimfile
                        else:
                            slicevartot.append(slice(0,ldimfile))
                    newvar[tuple(slicevartot)] = objvar[:]
                    newnc.sync()
                else:
                    print errormsg
                    print '  ' + fname + ": file '" + fold + '/' + confiles[ifile] + \
                      "' does not have variable '" + dvar + "' !!"
                    quit(-1)
        else:
            newvar[:] = objvar[:]
            newnc.sync()

#        newvar[:] = vartotv

    gattrs = ncobjs[0].ncattrs()
    for attr in gattrs:
        attrv = ncobjs[0].getncattr(attr)
        newattr = set_attribute(newnc, attr, attrv)

    for ifile in range(Nfiles):
        ncobjs[ifile].close()

    newnc.sync()
    newnc.close()

    print "Successfull creation of concatenated file '" + ofile + "' !!!"

    return

def netcdf_fold_concatenation(values, ncfile, varn):
    """ Function to concatenate netCDF files in a given folder for a given set of variables
    netcdf_fold_concateation(values, ncfile, varn)
      [values]= [fold],[dimname]
        [fold]: folder with the location of the netCDF files
        [dimname]: dimension along which files should be concatenated
        [tail]: tail of the files to concatenate (optional)
      [ncfile]= header of the name of the files to concatenate [ncfile]*
      [varn]= ',' separated list of variables to concatenate 
          [var1],[var2],[...[varN]] or 'all' for all variables
    """
    import subprocess as sub
    fname='netcdf_fold_concatenate'

    ofile = 'netcdf_fold_concatenated.nc'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print netcdf_fold_concatenation.__doc__
        quit()

    fold = values.split(',')[0]
    condim = values.split(',')[1]

    confiles = gen.files_folder(fold,ncfile)
    Nfiles = len(confiles)

    print '  ' + fname +': concatenating:', Nfiles, 'files'
    if Nfiles == 0:
        print errormsg
        print '  ' + fname + ": there are no files as '" + fold + '/' + ncfile + "*' !!"
        quit(-1)
    print confiles

# Opening all files
    ncobjs = []
    for filen in confiles:
        print 'charging: ',filen
        ncobjs.append(NetCDFFile(fold + '/' + filen, 'r'))

# Looking for the new length of the concatenation dimension
    if not ncobjs[0].dimensions.has_key(condim):
        print errormsg
        print '  ' + fname + ": files do not have dimensions '" + condim + "' !!!"
        quit(-1)

    totcondim = 0
    for ifile in range(Nfiles):
        ncobj = ncobjs[ifile]
        totcondim = totcondim + len(ncobjs[ifile].dimensions[condim])

    print "total concatenated dimension '" + condim + "': ", totcondim

# concatenated file creation
##
    newnc = NetCDFFile(ofile, 'w')

# dimension creation 
##
    if ncobjs[0].dimensions[condim].isunlimited():
        newnc.createDimension(condim, None)
    else:
        newnc.createDimension(condim, totcondim)
# Fake variable for the dimension
    print 'condim:',condim
    dims = []
    dims.append(condim)
    newvar = newnc.createVariable('int' + condim, 'i4', tuple(dims))
    newvar[:] = range(totcondim)

# Looping variables
##
    if varn == 'all':
        desvars = ncobjs[0].variables
    else:
        desvars = varn.split(',')

    for dvar in desvars:
        if not ncobjs[0].variables.has_key(dvar):
            print errormsg
            print '  ' + fname + ": files do not have variable '" + dvar + "' !!!"
            quit(-1)

    for dvar in desvars:
        print '  ' + fname + ": concatenating '" + dvar + "'..."
        objvar = ncobjs[0].variables[dvar]
# creation of dimensions
        vardims = objvar.dimensions
        for ndim in vardims:
            if not newnc.dimensions.has_key(ndim):
                vardimo = ncobjs[0].dimensions[ndim]
                if vardimo.isunlimited():
                    newnc.createDimension(ndim, None)
                else:
                    newnc.createDimension(ndim, len(vardimo))
# creation of variable
        kvar = objvar.dtype
        newvar = newnc.createVariable(dvar, kvar, objvar.dimensions)
        varattrs = objvar.ncattrs()
        for atr in varattrs:
            attrv = objvar.getncattr(atr)
            newattr = set_attribute(newvar, atr, attrv)

# variable values
#        vartotv = np.zeros((newvar.shape), dtype=kvar)
        objvar = ncobjs[0].variables[dvar]

        if gen.searchInlist(list(objvar.dimensions),condim):
            begslicetot = 0
            for ifile in range(Nfiles):
                slicevartot = []
                if ncobjs[ifile].variables.has_key(dvar):
                    objvar = ncobjs[ifile].variables[dvar]
                    for dimn in objvar.dimensions:
                        ldimfile = len(ncobjs[ifile].dimensions[dimn])
                        if dimn == condim:
                            slicevartot.append(slice(begslicetot,begslicetot+ldimfile))
                            begslicetot = begslicetot + ldimfile
                        else:
                            slicevartot.append(slice(0,ldimfile))
                    newvar[tuple(slicevartot)] = objvar[:]
                    newnc.sync()
                else:
                    print errormsg
                    print '  ' + fname + ": file '" + fold + '/' + confiles[ifile] + \
                      "' does not have variable '" + dvar + "' !!"
                    quit(-1)
        else:
            newvar[:] = objvar[:]
            newnc.sync()

#        newvar[:] = vartotv

    gattrs = ncobjs[0].ncattrs()
    for attr in gattrs:
        attrv = ncobjs[0].getncattr(attr)
        newattr = set_attribute(newnc, attr, attrv)

    for ifile in range(Nfiles):
        ncobjs[ifile].close()

    newnc.sync()
    newnc.close()

    print "Successfull creation of concatenated file '" + ofile + "' !!!"

    return

#netcdf_fold_concatenation('/media/data2/etudes/WRF_LMDZ/WL_HyMeX_HighRes/medic950116,Time', 'wrfout_d03', 'Times,XLONG,XLAT,T2,TH2,PSFC,U10,V10,MAPFAC_M')

def netcdf_concatenation(ncfile):
    """ Function to concatenate netCDF files for a given set of variables
    netcdf_concateation(values, ncfile, varn)
      [ncfile]= [filename1]@[varn1]|[filename1]@[varn1] '|' list of file names and variables to concatenate 
        [varn]= ',' separated list of variables to concatenate 
          [var1],[var2],[...[varN]] or 'all' for all variables
    """
    fname='netcdf_concatenate'

    ofile = 'netcdf_concatenated.nc'

    if ncfile == 'h':
        print fname + '_____________________________________________________________'
        print netcdf_concatenation.__doc__
        quit()

    confiles = ncfile.split('|')
    Nfiles = len(confiles)

    print '  ' + fname +': concatenating:',Nfiles,'files'
    print confiles

# Opening all files
    filenames = []
    ncobjs = []
    for files in confiles:
        filen = files.split('@')[0]
        filenames.append(filen)
        if not os.path.isfile(filen):
                print errormsg
                print '  ' + fname + ": file '" + filen + "' does no exist!!"
                quit(-1)

        print 'charging: ',filen
        ncobjs.append(NetCDFFile(filen, 'r'))

# concatenated file creation
##
    newnc = NetCDFFile(ofile, 'w')

# Looping variables
##
    ifile = 0
    for files in confiles:
        filen = files.split('@')[0]
        desvar = files.split('@')[1]
        if desvar == 'all':
            desvars = ncobjs[ifile].variables
        else:
            desvars = desvar.split(',')

        for dvar in desvars:
            if not ncobjs[ifile].variables.has_key(dvar):
                print errormsg
                print '  ' + fname + ": files do not have variable '" +dvar+ "' !!!"
                quit(-1)

        for dvar in desvars:
            if not newnc.variables.has_key(dvar):
                print '  ' + fname + ": concatenating '" + dvar + "' from '" + filen+\
                  "'..."
                objvar = ncobjs[ifile].variables[dvar]
# creation of dimensions
                vardims = objvar.dimensions
                for ndim in vardims:
                    if not newnc.dimensions.has_key(ndim):
                        vardimo = ncobjs[ifile].dimensions[ndim]
                        if vardimo.isunlimited():
                            newnc.createDimension(ndim, None)
                        else:
                            newnc.createDimension(ndim, len(vardimo))
# creation of variable
                kvar = objvar.dtype
                newvar = newnc.createVariable(dvar, kvar, objvar.dimensions)
                varattrs = objvar.ncattrs()
                for atr in varattrs:
                    attrv = objvar.getncattr(atr)
                    newattr = set_attribute(newvar, atr, attrv)

# variable values
#        vartotv = np.zeros((newvar.shape), dtype=kvar)
                objvar = ncobjs[ifile].variables[dvar]
                newvar[:] = objvar[:]
                newnc.sync()

#        newvar[:] = vartotv
        ifile = ifile + 1

    gattrs = ncobjs[0].ncattrs()
    for attr in gattrs:
        attrv = ncobjs[0].getncattr(attr)
        newattr = set_attribute(newnc, attr, attrv)

    filesnvec = numVector_String(filenames,', ')
    newattr = set_attribute(newnc, 'concatenated', filesnvec)

    for ifile in range(Nfiles):
        ncobjs[ifile].close()

    newnc.sync()
    newnc.close()

    print "Successfull creation of concatenated file '" + ofile + "' !!!"

    return

#netcdf_concatenation('mean_pluc.nc@all|mean_dtcon.nc@all')

def field_stats(values, ncfile, varn):
    """ Function to retrieve statistics from a field
    field_stats(values, ncfile, varn)
      [values]= [stats],[fillVals]
        [stats]: kind of statistics 
          'full': all statistics given variable
        [fillVals]: ':' list of _fillValues ('None' for any)
        [countVals]: ':' list of Values@cond to use to count conditions ('None' for any)
      [ncfile]= name of the netCDF file to use
      [varn]= variable name to use ('all' for all variables)
    """
    import numpy.ma as ma
    fname='field_stats'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print field_stats.__doc__
        quit()


    arguments = '[stats],[fillVals],[coutnVals]'
    gen.check_arguments(fname,values,arguments,',')

    stats=values.split(',')[0]
    fillVals=values.split(',')[1]
    countVals=values.split(',')[2]

# Fill Values
    if fillVals == 'None':
        fillV = None
    else:
        if fillVals.find(':') != -1:
            fillV = fillVals.split(':')
            NfillV = len(fillV)
        else:
            fillV = [fillVals]
            NfillV = 1

# Count Values
    if countVals == 'None':
        countV = None
        NcountV = 0
    else:
        if countVals.find(':') != -1:
            countV = countVals.split(':')
            NcountV = len(countV)
        else:
            countV = [countVals]
            NcountV = 1

    ncobj = NetCDFFile(ncfile, 'r')

    if varn == 'all':
        varstats = list(ncobj.variables)
    else:
        varstats = [varn]

    print '  ' + fname + " file: '" + ncfile + "'..."
    print '  ' + fname + '______ ______ _____ ____ ___ __ _'
    for vn in varstats:
        if not ncobj.variables.has_key(vn):
            print errormsg
            print '  ' + fname + ": file do not have variable '" + vn + "' !!"
            quit(-1)
    
        objfield = ncobj.variables[vn]
        field = objfield[:]
        dtype = objfield.dtype

        counts = []
        if countVals is not None:
            for icV in range(NcountV):
                cV = countV[icV].split('@')[0]
                cC = countV[icV].split('@')[1]
                countval = gen.retype(cV, dtype)
                counts.append([gen.count_cond(field, countval, cC), cC, countval])

        if fillVals is not None:
            for ifV in range(NfillV):
                fillval = gen.retype(fillV[ifV], dtype)
                field = ma.masked_equal(field, fillval)

        print '   ' + vn + '... .. .'
        if stats == 'full':
            minv = np.min(field)
            maxv = np.max(field)
            meanv = np.mean(field)
            mean2v = np.mean(field*field)
            varv = np.sqrt(mean2v - meanv*meanv)

            print '    Fstats shape:',field.shape
            print '    Fstats min:', minv
            print '    Fstats max:', maxv
            print '    Fstats mean:', meanv
            print '    Fstats mean2:', mean2v
            print '    Fstats variability:', varv
            if countVals is not None:
                for icV in range(NcountV):
                    convals = counts[icV]
                    print "    Fstats N values '" + convals[1] + "'", convals[2],    \
                      ':', convals[0]
        else:
            print errormsg
            print '  ' + fname + ": kind of statistics '" + values + "' not ready!!"
            print '    valid statistics: full'
            quit(-1)

    ncobj.close()

    return

#field_stats('full', 'geo_em.d01.nc', 'HGT_M')

def filter_2dim(values, ncfile, varn):
    """ Function to filter along 2 dimensions (moving grid-box means of a given size) values of the netCDF file
    filter_2dim(values, ncfile, variable)
      values= [Ngrid],[dimnh1],[dimnh2],[dimvnh1],[dimvnh2]
        Ngrid: box size to make means
        dimnh[1/2]: name of the 2 dimensions to make the averages
        dimvnh[1/2]: name of the 2 variables with the values of the dimensions to make the averages
      ncfile= netCDF file to use
      varn= name of the variable to filter ('all' for all variables)
      filter_2dim('80,y,x,lon,lat', 'tahiti_5m_ll.grd', 'z')
    """

    fname = 'filter_2dim'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print filter_2dim.__doc__
        quit()

    expectargs = '[Ngrid],[dimnh1],[dimnh2],[dimvnh1],[dimvnh2]'
 
    check_arguments(fname,values,expectargs,',')

    Ngrid = int(values.split(',')[0])
    dimnh1 = values.split(',')[1]
    dimnh2 = values.split(',')[2]
    dimvnh1 = values.split(',')[3]
    dimvnh2 = values.split(',')[4]

    Ngrid2 = Ngrid/2
    dimhorns = [dimnh1, dimnh2]
    dimvhorns = [dimvnh1, dimvnh2]

    if varn == 'all':
        varns = ncobj.variables
        ofile = 'filter_hor.nc'
    else:
        varns = [varn]
        ofile = 'filter_hor_' + varn + '.nc'

    ncobj = NetCDFFile(ncfile,'r')
    newnc = NetCDFFile(ofile, 'w')

    for vn in varns:
        varvobj = ncobj.variables[vn]
        vardims = varvobj.dimensions
        print '  ' + fname + ' var:', vn, 'variable shape:', varvobj.shape
        for dimn in vardims:
            dimobj = ncobj.dimensions[dimn]
            if not newnc.dimensions.has_key(dimn):
                if dimobj.isunlimited():
                    newnc.createDimension(dimn, None)
                else:
                    newnc.createDimension(dimn, len(dimobj))

        if searchInlist(varvobj.ncattrs(),'_FillValue'): 
            vfillValue = varvobj._FillValue
        else:
            vfillValue = fillValue

        vtype = varvobj.dtype
        if searchInlist(dimvhorns,vn):
            print '  ' + fname + ': dimension values variable!'
            print "    keeping original values as '" + vn + "' and filtered as '" +  \
              vn+'_flt'+str(Ngrid)+'x'+str(Ngrid) + "'"
            newvar = newnc.createVariable(vn, vtype, vardims)
            newvar[:] = varvobj[:]
            vattr = varvobj.ncattrs()
            for nattr in vattr:
                attrv = varvobj.getncattr(nattr)
                if nattr != '_FillValue': newattr = set_attribute(newvar,nattr,attrv)
            newvar = newnc.createVariable(vn+'_flt'+str(Ngrid)+'x'+str(Ngrid),       \
              vtype, vardims)
        else:
            newvar = newnc.createVariable(vn, vtype, vardims, fill_value = fillValue)

        if searchInlist(vardims,dimnh1) or searchInlist(vardims,dimnh2):
            varv = varvobj[:]
            varfilt = varvobj[:]
            dimh1id = -1
            dimh2id = -1
            if searchInlist(vardims,dimnh1): dimh1id= vardims.index(dimnh1)
            if searchInlist(vardims,dimnh2): dimh2id= vardims.index(dimnh2)

            if dimh1id != -1 and dimh2id != -1:
                print '    ' + fname + ': 2D filtered variable'
                dh1 = varvobj.shape[dimh1id]
                dh2 = varvobj.shape[dimh2id]

                for i in range(Ngrid2,dh1-Ngrid2+1):
                    for j in range(Ngrid2,dh2-Ngrid2+1):
                        percendone(i*(dh1-Ngrid)*1.+j,(dh1-Ngrid)*(dh2-Ngrid)*1., 1.,   \
                          vn + ' filtered: ' + str(i) + ', ' + str(j))
                        varslice = []
                        varslicesum = []
                        for dimn in vardims:
                            if dimn == dimnh1:
                                varslicesum.append(slice(i-Ngrid2,i+Ngrid2+1))
                                varslice.append(slice(i,i+1))
                            elif dimn == dimnh2:
                                varslicesum.append(slice(j-Ngrid2,j+Ngrid2+1))
                                varslice.append(slice(j,j+1))
                            else:
                                varslicesum.append(slice(0,                          \
                                  len(ncobj.dimensions[dimn])))
                                varslice.append(slice(0, len(ncobj.dimensions[dimn])))

# Doing nothing for _FillValue values
                        varvalssum = varv[tuple(varslicesum)]
                        if varvalssum.mask.all():
                            varfilt[tuple(varslice)] = fillValue
                        else:
                            numberValues = len(varvalssum.compressed())
                            if dimh1id < dimh2id:
                                varfilt[tuple(varslice)] = np.sum(np.sum(varvalssum, \
                                  axis=dimh1id), axis=dimh2id-1)/(numberValues*1.)
                            else:
                                varfilt[tuple(varslice)] = np.sum(np.sum(varvvlssum, \
                                  axis=dimh2id), axis=dimh1id-1)/(numberValues*1.)
                print '    ' + fname + ': 2D Finished!!'
            elif dimh1id != -1 and dimh2id == -1:
                print '    ' + fname + ': 1D filtered variable'
                for i in range(Ngrid2,varvobj.shape[dimh1id]-Ngrid2+1):
                    percendone(i,(dh1-Ngrid), 1, vn + ' filtered')
                    varslice = []
                    varslicesum = []
                    for dimn in vardims:
                        if dimn == dimhn1:
                            varslicesum.append(slice(i-Ngrid2,i+Ngrid2+1))
                        else:
                            varslicesum.append(slice(0, len(ncobj.dimensions[dimn])))

                        varvalssum = varv[tuple(varslicesum)]
                        if varvalssum.mask.all():
                            varfilt[tuple(varslice)] = fillValue
                        else:
                            numberValues = len(varvalssum.compressed())
                            varfilt[tuple(varslice)] = np.sum(varvalssum,            \
                              axis=dimh1id)/numberValues*1.
                print '    ' + fname + ': 1D Finished!!'
            elif dimh2id != -1 and dimh1id == -1:
                print '    ' + fname + ': 1D filtered variable'
                for j in range(Ngrid2,varvobj.shape[dimh2id]-Ngrid2+1):
                    percendone(j,(dh2-Ngrid), 1, vn + ' filtered')
                    varslice = []
                    varslicesum = []
                    for dimn in vardims:
                        if dimn == dimhn2:
                            varslicesum.append(slice(j-Ngrid2,j+Ngrid2+1))
                        else:
                            varslicesum.append(slice(0, len(ncobj.dimensions[dimn])))

                        varvalssum = varv[tuple(varslicesum)]
                        if varvalssum.mask.all():
                            varfilt[tuple(varslice)] = fillValue
                        else:
                            numberValues = len(varvalssum.compressed())
                            varfilt[tuple(varslice)] = np.sum(varvalssum,            \
                              axis=dimh2id)/numberValues
                print '    ' + fname + ': 1D Finished!!'
            newvar[:] = varfilt
        else:
            newvar[:] = varvobj[:]

        vattr = varvobj.ncattrs()
        for nattr in vattr:
            attrv = varvobj.getncattr(nattr)
            if nattr != '_FillValue': newattr = set_attribute(newvar, nattr, attrv)

    gattr = ncobj.ncattrs()
    for nattr in gattr:
        attrv = ncobj.getncattr(nattr)
        newattr = set_attribute(newnc, nattr, attrv)
    
    ncobj.close()
    newnc.sync()
    newnc.close()

    print fname + ": successfull creation of '" + ofile + "' !!!"

    return

#filter_2dim('80,y,x,lon,lat', 'tahiti_5m_ll.grd', 'z')

def ncreplace(values, ncfile, varn):
    """ Function to replace something from a netCDF file
      values= [kind],[kindn],[netcdffileref]
        kind: element to substitute
          'var': variable
          'vattr': variable attributes
          'gattr': global attributes
        kindn: name of the 'something' to replace ('all', for all possible values, 
          [varn]@[attrn] for attribute of a given variable)
        netcdffileref: netCDF file from which replace values will be taken
      ncfile= netCDF file to replace something
      varn= name to use (accordingly to '[kind]')
      ncreplace('var,HGT_M,Polynesie_filtered_nn.nc', 'geo_em.d04.nc', 'HGT_M')
    """

    fname = 'ncreplace'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print ncreplace.__doc__
        quit()

    expectargs = '[kind],[kindn],[netcdffileref]'
 
    check_arguments(fname,values,expectargs,',')

    kind = values.split(',')[0]
    kindn = values.split(',')[1]
    netcdffileref = values.split(',')[2]

    print '  ' + fname + ": replacing '" + kind + "' in '" + ncfile + "' using '" +  \
      netcdffileref + "' ..."

    if not os.path.isfile(netcdffileref):
        print errormsg
        print '  ' + fname + ": reference file '" + netcdffileref +                  \
          "' does not exist !!"
        quit(-1)

    ncrefobj = NetCDFFile(netcdffileref, 'r')
    ncobj = NetCDFFile(ncfile, 'a')

    if kind == 'var' and kindn != 'all':
        if not ncrefobj.variables.has_key(kindn):
            print errormsg
            print '  ' + fname + ": reference file does not have variable '" + kindn \
              + "' !!"
            print '    it has: ',ncrefobj.variables.keys()
            quit(-1)
    elif kind == 'vattr' and kindn != 'all':
        if kindn.index('@') == -1:
            print errormsg
            print '  ' + fname + ": an pair [var]@[attrn] is not given! '" + kindn + \
              + "' !!"
            quit(-1)
        varn = kindn.split('@')[0]
        attrn = kindn.split('@')[1]
        if not ncrefobj.variables.has_key(varn):
            print errormsg
            print '  ' + fname + ": reference file does not have variable '" + varn +\
              "' !!"
            quit(-1)
        varobj = ncrefobj.variables[varn]
        if not searchInlist(varobj.ncattrs(), attrn):
            print errormsg
            print '  ' + fname + ": reference variable '" + varn +                   \
              "' does not have attribute '" + attrn + "' !!"
            quit(-1)
    else:
        print errormsg
        print '  ' + fname + ": kind to replace '" + kind + "' not ready !!"
        quit(-1)

    if kind == 'var':
        if kindn == 'all':
            varrefns = ncrefobj.variables
            varns = ncobj.variables
        else:
            varrefns = [kindn]
            varns = [varn]
# On kindn= 'all' &  varn= 'all' one has to assume same variables' names
        for vnref in varrefns:
            if not ncrefobj.variables.has_key(vnref):
                print errormsg
                print '  ' + fname + ": reference file does not have variable '" +   \
                  vnref + "' !!"
                quit(-1)
            for vn in varns:  
                if not ncobj.variables.has_key(vn):
                    print errormsg
                    print '  ' + fname + ": file does not have variable '" + vn +    \
                      "' !!"
                    quit(-1)
                if kindn == 'all' and vnref == vn:
                    print '    ' + fname + ": replacing all now '" + vn + "' with '"+\
                      vnref + "' ..."
                    varv = ncobj.variables[vn]
                    varrefv = ncrefobj.variables[vnref][:]
                    varv[:] = varrefv
                    ncobj.sync()
                    break
                else:
                    vdimns = numVector_String(ncobj.variables[vn].shape,':')
                    vrefdimns = numVector_String(ncrefobj.variables[vnref].shape,':')

                    if vdimns != vrefdimns:
                        print errormsg
                        print '  ' + fname + ': values can not be replaced!'
                        print '    different shapes! original:',                     \
                           ncobj.variables[vn].shape,'reference:',                   \
                           ncrefobj.variables[vnref].shape
# In case of HGT_M... #                        quit(-1)
                        quit(-1)

                    print '    ' + fname + ": replacing '" + vn + "' with '" +       \
                      vnref + "' ..."
                    varv = ncobj.variables[vn]
                    varrefv = ncrefobj.variables[vnref][:]
# In case of HGT_M...                   varv[0,:,:] = varrefv
                    varv[:] = varrefv
                    ncobj.sync()
    else:
        print errormsg
        print '  ' + fname + ": kind to replace '" + kind + "' not exactly ready !!"
        quit(-1)

    ncobj.sync()
    ncobj.close()
    ncrefobj.close()

    return

def ncstepdiff(values, ncfile, varn):
    """ Function to compute differencies between time-steps (deacumulate) a netCDF file
      new variables labelled [varn] + 'de'will be added to the file
      values= [tdimn],[tvarn]
        tdimn: name of the dimension time
        tvarn: name of the variable time
      ncfile= netCDF file to replace something
      varn= ',' list of variables to deaccumulate ('all' for all)
      ncstepdiff('Time,Times', '/home/lluis/PY/wrfout_d01_2001-11-11_00:00:00.tests', 'Q2')
    """
    fname = 'ncstepdiff'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print ncstepdiff.__doc__
        quit()

    expectargs = '[tdimn],[tvarn]'
 
    check_arguments(fname,values,expectargs,',')

    tdimn = values.split(',')[0]
    tvarn = values.split(',')[1]

    onc = NetCDFFile(ncfile, 'a')

    if varn.find(',') != -1:
        if varn != 'all':
            varns = varn.split(',')
        else:
            varns = onc.variables
    else:
        varns = [varn]

    otdim = onc.dimensions[tdimn]
    otvar = onc.variables[tvarn]
    timeinf = cls_time_information(onc, tvarn)
    
    dimt = len(otdim)

    print '  ' + fname + ': deaccumulating _______'
    for vn in varns:
        print "    '" + vn + "'"
        ovar = onc.variables[vn]
        varinf = variable_inf(ovar)

        if not searchInlist(varinf.dimns, tdimn):
            print warnmsg
            print '  ' + fname  + ": variable '" + vn + "' has not time dimension '"+\
              tdimn + "' !!"
            print '    skipping it'
        else:
            slicefwd, dfwd = slice_variable(ovar, tdimn + ':1@'+str(dimt))
            slicebck, dbck = slice_variable(ovar, tdimn + ':0@'+str(dimt-1))

            deaccum = np.zeros((varinf.dims), dtype=varinf.dtype)
            ddeaccum = []
            for idv in range(varinf.Ndims):
                if varinf.dimns[idv] == tdimn:
                    ddeaccum.append(slice(1,varinf.dims[idv]))
                else:
                    ddeaccum.append(slice(0,varinf.dims[idv]))

            deaccum[tuple(ddeaccum)] = slicefwd - slicebck

            if not searchInlist(onc.variables, vn + 'de'):
                if varinf.FillValue is not None:
                    newvar = onc.createVariable(vn + 'de', varinf.dtype,             \
                      tuple(varinf.dimns), fill_value = varinf.FillValue)
                else:
                    newvar = onc.createVariable(vn + 'de', varinf.dtype,             \
                      tuple(varinf.dimns))
            else:
                print warnmsg
                print '  ' + fname + ": variable '" + vn + "de' already exist " +    \
                  'replacing values !!'
                newvar = onc.variables[vn + 'de']

            if timeinf.dt is not None:
# Not sure of this...
#                newvar[:] = deaccum / timeinf.dt
                newvar[:] = deaccum
            else:
                newvar[:] = deaccum

            newattr = set_attribute(newvar, 'deaccumulated', 'True')
            if timeinf.dt is not None:
                newattr = set_attributek(newvar, 'time_step_diff', timeinf.dt,       \
                  'npfloat')
                newattr = set_attribute(newvar, 'values', 'divided by time_step_diff')

            for attrn in varinf.attributes:
                attrv = ovar.getncattr(attrn)
                newattr = set_attribute(newvar, attrn, attrv)

        onc.sync()

    onc.close()

    return
#ncstepdiff('Time,Times', '/home/lluis/PY/wrfout_d01_2001-11-11_00:00:00.tests', 'Q2,T2')

def file_creation(values, ncfile, varn):
    """ Operation to create a file with one variable with a given set of dimensions
      values= [dimensions]|[varattributes]|[kind]
        [dimensions]: [dimn1]:[dsize1],...,[dimnN]:[dsizeN], ',' pairs of variable name [dimn] and [size]
          if [dsize] = 'None' (for UNLIMITED), give a third value with the real size
        [attributes]: [std_name]@[long_name]@[units], standard name, long name and units of the variable
        [kind]: type of variable (standard netCDF4/C-like values, 'c', 'i', 'f', 'f8',...)
      ncfile= name of the file
      varn= name of the variables
    """
    fname = 'file_creation'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print file_creation.__doc__
        quit()

    expectargs = '[dimensions]|[varattributes]|[kind]'
 
    check_arguments(fname,values,expectargs,'|')

    dimensions = values.split('|')[0].split(',')
    attributes = values.split('|')[1]
    kind = values.split('|')[2]

    onc = NetCDFFile(ncfile, 'w')

# Dimensions
    dnames = []
    dsize = []
    for dim in dimensions:
#        print "  Adding: '" + dim + "' ..."
        dimn = dim.split(':')[0]
        dimv = dim.split(':')[1]
        if dimv == 'None':
            if len(dim.split(':')) != 3:
                print errormsg
                print '  ' + fname + ": dimension '" + dimn + "' is None but the " + \
                  'size is requried!!'
                quit(-1)
            else:
                dv = None
                dsize.append(int(dim.split(':')[2]))
        else:
            dv = int(dimv)
            dsize.append(dv)

        dnames.append(dimn)

        newdim = onc.createDimension(dimn, dv)
    
    onc.sync()

# Variable
    if kind == 'c':
        newvar = onc.createVariable(varn, 'c', tuple(dnames))
#        newvar[:] = np.zeros(tuple(dsize), dtype=np.float)
    if kind == 'f' or kind == 'f4':
        newvar = onc.createVariable(varn, 'f4', tuple(dnames), fill_value=fillValue)
        newvar[:] = np.zeros(tuple(dsize), dtype=np.float)
    elif kind == 'f8':
        newvar = onc.createVariable(varn, 'f8', tuple(dnames),                       \
          fill_value= np.float64(fillValue))
        newvar[:] = np.zeros(tuple(dsize), dtype=np.float64)
    elif kind == 'i':
        newvar = onc.createVariable(varn, 'i', tuple(dnames), fill_value=-999999)
        newvar[:] = np.zeros(tuple(dsize), dtype=int)
    else:
        print errormsg
        print '  ' + fname + ": variable kind '" + kind + "' not ready!!"
        quit(-1)

    sname = attributes.split('@')[0]
    lname = attributes.split('@')[1]
    u = attributes.split('@')[2]
    
    newattr = basicvardef(newvar, sname, lname, u)

    onc.sync()

# Global attributes
    newattr = set_attribute(onc, 'description', "file creation using " + fname )
    onc.sync()
    onc.close()

#file_creation('time_counter:12,sizes:24|time@time@seconds since 1949-12-01 00:00:00|f8', 'test.nc', 't_instant')

def var_creation(values, ncfile, varn):
    """ Operation to create a new variable in a file with a given set of dimensions
      values= [dimensions]|[varattributes]|[kind]
        [dimensions]: [dimn1]:[dsize1],...,[dimnN]:[dsizeN], ',' pairs of variable name [dimn] and [size]
          if [dsize] = 'None', give a third value with the real size
        [attributes]: [std_name]@[long_name]@[units], standard name, long name and units of the variable
          ('!' for spaces)
        [kind]: type of variable (standard netCDF4/C-like values, 'c', 'i', 'f', 'f8',...)
      ncfile= name of the file
      varn= name of the variables
    """
    fname = 'var_creation'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print var_creation.__doc__
        quit()

    expectargs = '[dimensions]|[varattributes]|[kind]'
 
    check_arguments(fname,values,expectargs,'|')

    dimensions = values.split('|')[0].split(',')
    attributes = values.split('|')[1].replace('!',' ')
    kind = values.split('|')[2]

    onc = NetCDFFile(ncfile, 'a')

# Dimensions
    dnames = []
    dsize = []
    for dim in dimensions:
#        print "  Adding: '" + dim + "' ..."
        dimn = dim.split(':')[0]
        dimv = dim.split(':')[1]
        if dimv == 'None':
            if len(dim.split(':')) != 3:
                print errormsg
                print '  ' + fname + ": dimension '" + dimn + "' is None but the " + \
                  'size is requried!!'
                quit(-1)
            else:
                dv = None
                dsize.append(int(dim.split(':')[2]))
        else:
            dv = int(dimv)
            dsize.append(dv)

        dnames.append(dimn)

        if not searchInlist(onc.dimensions, dimn):
            newdim = onc.createDimension(dimn, dv)

    onc.sync()

# Variable
    if kind == 'c':
        newvar = onc.createVariable(varn, 'c', tuple(dnames))
#        newvar[:] = np.zeros(tuple(dsize), dtype=np.float)
    elif kind == 'f' or kind == 'f4':
        newvar = onc.createVariable(varn, 'f4', tuple(dnames), fill_value=fillValue)
        newvar[:] = np.zeros(tuple(dsize), dtype=np.float)
    elif kind == 'f8':
        newvar = onc.createVariable(varn, 'f8', tuple(dnames),                       \
          fill_value=np.float64(fillValue))
        newvar[:] = np.zeros(tuple(dsize), dtype=np.float64)
    elif kind == 'i':
        newvar = onc.createVariable(varn, 'i', tuple(dnames), fill_value=-99999)
        newvar[:] = np.zeros(tuple(dsize), dtype=int)
    else:
        print errormsg
        print '  ' + fname + ": variable kind '" + kind + "' not ready!!"
        quit(-1)

    sname = attributes.split('@')[0]
    lname = attributes.split('@')[1]
    u = attributes.split('@')[2]
    
    newattr = basicvardef(newvar, sname, lname, u)

    onc.sync()
    onc.close()

#var_creation('dim1:12,sizes:24|time@time@seconds since 1949-12-01 00:00:00|f4', 'test.nc', 'var2')
#quit()

def dimToUnlimited(values, ncfile):
    """ Operation to create an unlimited dimension from an existing one
      values= Name of the dimension to transform
      ncfile= name of the file
    """
    fname = 'dimToUnlimited'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print dimToUnlimited.__doc__
        quit()

    dimn = values

    ncobj = NetCDFFile(ncfile, 'r')
    dimnames = ncobj.dimensions.keys()
    variables = ncobj.variables.keys()

    if not searchInlist(dimnames,dimn):
        print errormsg
        print '  ' + fname + ": dimension '" + dimn + "' does not exist in file '" + \
          ncfile + "' !!"
        print '    existing ones are:',ncobj.dimensions.keys()
        quit(-1)

# Creation of a new file
    newnc = NetCDFFile('new_' + ncfile, 'w')

# Creation of dimensions
    for dn in dimnames:
        print 'adding dim:',dn
        if ncobj.dimensions[dn].isunlimited() or dn == dimn:
            newdim = newnc.createDimension(dn, None)
        else:
            newdim = newnc.createDimension(dn, len(ncobj.dimensions[dn]))

#    ncobj.close()
    newnc.sync()
#    newnc.close()

# Adding variables
    for vn in variables:
        print 'adding variable:',vn
        vno = ncobj.variables[vn]
        vdim = vno.dimensions
        vtype = vno.dtype
        varatts = vno.ncattrs()

        if searchInlist(varatts, '_FillValue'):
            fillv = vno.getncattr('_FillValue')
            newvar = newnc.createVariable(vn, vtype, vdim, fill_value=fillv)
        else:
            newvar = newnc.createVariable(vn, vtype, vdim)

        newvar[:] = vno[:]
        for nattr in vno.ncattrs():
            if not nattr == '_FillValue':
                nattrv = vno.getncattr(nattr)
                newattr = newvar.setncattr(nattr, nattrv)

# Adding attributes
    fgaddattr(ncfile, 'new_' + ncfile)
    sub.call(['mv', 'new_'+ncfile, ncfile])

    return

#dimToUnlimited('lon', 'test.nc')

def increaseDimvar(values, ncfile, varn):
    """ Function to increase with 1 dimension an existing variable within a netcdf file. Values 
    of the variable will be repeated along the new dimension
      values='[dimname]:[size]:[position]:[unlimited]'
        dimname: name of the new dimension
        size: size of the new dimension
        position: position for the dimensions (starting from 0, outter most [left]) 
        unlimited: y/n value for an unlimited dimension
      ncfile= netCDF file to use
      varn= variable to change its dimensions

    """
    import subprocess as sub

    fname = 'increaseDimvar'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print increaseDimvar.__doc__
        quit()

    expectargs = '[dimname]:[size]:[position]:[unlimited]'
 
    check_arguments(fname,values,expectargs,':')

    dimname = values.split(':')[0]
    size = int(values.split(':')[1])
    position = int(values.split(':')[2])
    unlimited = values.split(':')[3]

    ofile = ncfile + '_new.nc'

    onc = NetCDFFile(ncfile, 'r')

    dims = onc.dimensions
    if searchInlist(dims, dimname):
        print errormsg
        print '  ' + fname + ": file '"  + ncfile + "' already has dimension '" +    \
          dimname + "' !!"
        quit(-1)

    varns = onc.variables
    if not searchInlist(varns, varn):
        print errormsg
        print '  ' + fname + ": file '"  + ncfile + "' has not variable '" + varn +  \
          "' !!"
        quit(-1)
    
    varobj = onc.variables[varn]
    vardims = varobj.dimensions
    varkind = varobj.dtype
    Norigdims = len(vardims)

    if position > Norigdims - 1:
        print errormsg
        print '  ' + fname + ": wrong position ", position," for the new dimension ",\
          "on variable '" + varn + "' has only", Norigdims," dimensions !!"
        quit(-1)

    newdimns = []
    newdimvs = []

    idorig = 0
    for idn in range(Norigdims + 1):
        if idn == position:
            newdimns.append(dimname)
            newdimvs.append(size)
        else:
            newdimns.append(vardims[idorig])
            newdimvs.append(varobj.shape[idorig])
            idorig = idorig + 1

# New variable
    newvarv = np.zeros(tuple(newdimvs), dtype=varkind)
    for inewdim in range(size):
        slicev = []
        idorig = 0
        for idn in range(Norigdims + 1):
            if idn == position:
                slicev.append(inewdim)
            else:
                slicev.append(slice(0,varobj.shape[idorig]))
                idorig = idorig + 1
  
        newvarv[tuple(slicev)] = varobj[:]
        
# Creation of a new file with the new variable dimensions
    newnc = NetCDFFile(ofile, 'w')

# Creation of dimensions
    for dn in dims:
        print 'adding dim:',dn,' ...'
        if onc.dimensions[dn].isunlimited():
            newdim = newnc.createDimension(dn, None)
        else:
            newdim = newnc.createDimension(dn, len(onc.dimensions[dn]))

    if unlimited == 'y':
        newdim = newnc.createDimension(dimname, None)
    else:
        newdim = newnc.createDimension(dimname, size)

    newnc.sync()

# Adding variables
    for vn in varns:
        print 'adding variable:',vn,'...'
        vno = onc.variables[vn]
        if vn == varn:
            vdim = tuple(newdimns)
        else:
            vdim = vno.dimensions
        vtype = vno.dtype
        varatts = vno.ncattrs()

        if searchInlist(varatts, '_FillValue'):
            fillv = vno.getncattr('_FillValue')
            newvar = newnc.createVariable(vn, vtype, vdim, fill_value=fillv)
        else:
            newvar = newnc.createVariable(vn, vtype, vdim)

        for nattr in vno.ncattrs():
            if not nattr == '_FillValue':
                nattrv = vno.getncattr(nattr)
                newattr = newvar.setncattr(nattr, nattrv)

        if vn == varn:
            newvar[:] = newvarv[:]
        else:
            newvar[:] = vno[:]


    onc.close()
    newnc.sync()
    newnc.close()

# Adding attributes
    fgaddattr(ncfile, ofile)
    sub.call(['mv',ofile,ncfile])

    return
#increaseDimvar('shan:29:1:y', 'test.nc', 'var')

def changevartype(values, ncfile, varn):
    """ Function to change the type of a variable (when possible)
      values=[newtype] type to use ('c', character; 'i', integer, 'f', float, 'd', double)
      ncfile= netCDF file to use
      varn= variable to change its type

    """
    import subprocess as sub
    fname = 'changevartype'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print changevartype.__doc__
        quit()

    newtype = values

    ofile = ncfile + '_new.nc'

    onc = NetCDFFile(ncfile, 'r')

    if not searchInlist(onc.variables, varn):
        print errormsg
        print '  ' + fname + ": file '"  + ncfile + "' has not variable '" + varn +  \
          "' !!"
        quit(-1)

    dims = onc.dimensions
    varns = onc.variables

# Creation of a new file with the new variable dimensions
    newnc = NetCDFFile(ofile, 'w')

# Creation of dimensions
    for dn in dims:
        print 'adding dim:',dn,' ...'
        if onc.dimensions[dn].isunlimited():
            newdim = newnc.createDimension(dn, None)
        else:
            newdim = newnc.createDimension(dn, len(onc.dimensions[dn]))

    newnc.sync()

# Transforming variable
    varo = onc.variables[varn]
    vartype = varo.dtype
    vardims = varo.dimensions
    varatts = varo.ncattrs()
    varshape = varo.shape
    varv = varo[:]

    if newtype == 'c':
        print errormsg
        print '  ' + fname + ": new type '" + newtype + "' not ready!!'"
    elif newtype == 'i':
        newvarv = varv.astype(int)
    elif newtype == 'f':
        newvarv = varv.astype(np.float)
    elif newtype == 'd':
        newvarv = varv.astype(np.float64)
    else:
        print errormsg
        print '  ' + fname + ": type '" + newtpe + "' not ready !!"
        print '    availables: i, f, d'
        quit(-1) 
    
    if searchInlist(varatts, '_FillValue'):
        fillv = varo.getncattr('_FillValue')
        newvar = newnc.createVariable(varn, newtype, vardims, fill_value=fillv)
    else:
        newvar = newnc.createVariable(varn, newtype, vardims)

    for nattr in varo.ncattrs():
        if not nattr == '_FillValue':
            nattrv = varo.getncattr(nattr)
            newattr = newvar.setncattr(nattr, nattrv)

    newvar[:] = newvarv

# Adding variables
    for vn in varns:
        print 'adding variable:',vn,'...'
        vno = onc.variables[vn]
        if vn != varn:
            vdim = vno.dimensions
            vtype = vno.dtype
            varatts = vno.ncattrs()

            if searchInlist(varatts, '_FillValue'):
                fillv = vno.getncattr('_FillValue')
                newvar = newnc.createVariable(vn, vtype, vdim, fill_value=fillv)
            else:
                newvar = newnc.createVariable(vn, vtype, vdim)

            for nattr in vno.ncattrs():
                if not nattr == '_FillValue':
                    nattrv = vno.getncattr(nattr)
                    newattr = newvar.setncattr(nattr, nattrv)

            newvar[:] = vno[:]

    onc.close()
    newnc.sync()
    newnc.close()

# Adding attributes
    fgaddattr(ncfile, ofile)
    sub.call(['mv',ofile,ncfile])

    return

#changevartype('i', 'test.nc', 'var')

def add_dims(oc,nc,dnames):
    """ Function to add dimensions from a given netCDF object to another one
      oc: source netcdfile object
      nc: netcdfile object to add dimensions
      dnames: list of name of dimensions to add
    """
    fname = 'add_dims'

    for dn in dnames:
        print '  ' + fname + ': adding dim:',dn,' ...'
        if oc.dimensions[dn].isunlimited():
            newdim = nc.createDimension(dn, None)
        else:
            newdim = nc.createDimension(dn, len(oc.dimensions[dn]))

    nc.sync()

    return

def add_vars(oc,nc,vnames):
    """ Function to add variables from a given netCDF object to another one
      oc: source netcdfile object
      nc: netcdfile object to add dimensions
      vnames: list of name of variables to add
    """
    fname = 'add_vars'

    for vn in vnames:
        if not searchInlist(nc.variables,vn):
            print '  ' + fname + ': adding var:',vn,' ...'

            varo = oc.variables[vn]
            vartype = varo.dtype
            vardims = varo.dimensions
            varattrs = varo.ncattrs()

            for vdn in vardims:
                if not searchInlist(nc.dimensions,vdn):
                    print warnmsg
                    print '  ' + fname + ": adding dimension '" + vdn +              \
                      "' from variable '" + vdn + "' which is not in file !!"
                    add_dims(oc,nc,[vdn])

            if searchInlist(varattrs,'_FillValue'):
                newvar = nc.createVariable(vn, vartype, vardims,                     \
                  fill_value=varo.getncattr('_FillValue'))
            else:
                newvar = nc.createVariable(vn, vartype, vardims)

            for attrn in varattrs:
                attrv = varo.getncattr(attrn)
                newattr = set_attribute(newvar, attrn, attrv)

            newvar[:] = varo[:]

        nc.sync()

    return

def add_globattrs(oc,nc,attrns):
    """ Function to add global attributes from a given netCDF object to another one
      oc: source netcdfile object
      nc: netcdfile object to add dimensions
      vnames: list of name of dimensions to add ('all', for all attributes)
    """
    fname = 'add_globattrs'

    allfattrs = oc.ncattrs()

    if attrns == 'all':
        fattrns = allfattrs
    else:
        fattrns = attrns

    for an in fattrns:
        if not searchInlist(allfattrs,an):
            print errormsg
            print '  ' + fname + ": file has not global attribute '" + an + "' !!"
            quit(-1)

        print '  ' + fname + ': adding attr:',an,' ...'
        
        av = oc.getncattr(an)
        newattr = set_attribute(nc, an, av)

    nc.sync()

    return

def selvar(values, ncfile, varn):
    """ Function to select a series of variables from a netcdf file. Variables with 
      the values of the associated dimensions will be also retrieved
      values= ',' list of couples [dimname]@[vardimname]
        [dimname]: name of the dimension
        [vardimname]: name of the variable with values for the dimension ('int', for 
          counter of integers with the dimension length)
      ncfile= netCDF file to use
      varnames= ',' list of variables to retrieve
    """
    fname = 'selvar'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print selvar.__doc__
        quit()

    varnames = varn.split(',')
    dimvals = values.split(',')

    ofile = fname + '_new.nc'

    onc = NetCDFFile(ncfile, 'r')

    for varn in varnames:
        if not searchInlist(onc.variables, varn):
            print errormsg
            print '  ' + fname + ": file '"  + ncfile + "' has not variable '" +     \
              varn + "' !!"
            quit(-1)

    dimsv = {}
    vardims = []
    for dimv in dimvals:
        dimn = dimv.split('@')[0]
        if not searchInlist(onc.dimensions, dimn):
            print errormsg
            print '  ' + fname + ": file '"  + ncfile + "' has not dimension '" +    \
              dimn + "' !!"
            quit(-1)
        varn = dimv.split('@')[1]
        if not varn == 'int' and not searchInlist(onc.variables, varn):
            print errormsg
            print '  ' + fname + ": file '"  + ncfile + "' has not variable '" +     \
              varn + "' !!"
            quit(-1)
        dimsv[dimn] = varn
        if varn != 'int': vardims.append(varn)

    newnc = NetCDFFile(ofile, 'w')

# Creation of dimensions
    add_dims(onc,newnc,dimsv.keys())

# Getting variables from dimensions
    add_vars(onc,newnc,vardims)

# Getting variables
    for varn in varnames:
        varobj = onc.variables[varn]
        vardims = varobj.dimensions
        for dimn in vardims:
            if not searchInlist(vardims,dimn):
                print errormsg
                print '  ' + fname + ": no assigned variable to dimension '" +       \
                  dimn + "' !!"
                quit(-1)

    add_vars(onc,newnc,varnames)

# Getting global attributes
    add_globattrs(onc,newnc,'all')

    onc.close()
    newnc.close()

    print "Successfull written of file '" + ofile + "' !!"

    return

#selvar('x@lon,y@lat,time@time,shan@int', '/home/lluis/PY/test.nc', 'var')

def compute_tevolboxtraj_radialsec(values, ncfile, varn):
    """ Function to compute tevolboxtraj_radialsec: temporal evolution at a given point along 
          a number of radii at a given frequency following a trajectory
      values= [trajfile]@[Tbeg],[lonname],[latname],[zname],[timename],[timekind],[Nangle],[radii]
        [trajfile]: ASCII file with the trajectory ('#' not readed)
          [time] [xpoint] [ypoint]
        [Tbeg]: equivalent first time-step of the traqjectory within the netCDF file
        [lonname],[latname],[zname],[timename]: longitude, latitude, z and time variables names
        [timekind]: kind of time
          'cf': cf-compilant
          'wrf': WRF kind
        [Nangle]: Number of angles
        [radii]: length in grid points of the radius
      ncfile= netCDF file to use
      varn= ',' list of variables' name ('all', for all variables)
    """
    import numpy.ma as ma
    import subprocess as sub

    fname='compute_tevolboxtraj_radialsec'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print compute_tevolboxtraj_radialsec.__doc__
        quit()

    arguments = '[trajfile]@[Tbeg],[lonname],[latname],[zname],[timename],' +        \
      '[timekind],[Nangle],[radii]]'
    check_arguments(fname,values,arguments,',')

    trajfile = values.split(',')[0].split('@')[0]
    Tbeg = int(values.split(',')[0].split('@')[1])
    lonn = values.split(',')[1]
    latn = values.split(',')[2]
    zn = values.split(',')[3]
    timn = values.split(',')[4]
    timekind = values.split(',')[5]
    Nangle = int(values.split(',')[6])
    radii = int(values.split(',')[7])

    if not os.path.isfile(ncfile):
        print errormsg
        print '  ' + fname + " netCDF file: '" + ncfile + "' does not exist !!"
        quit(-1)

    if not os.path.isfile(trajfile):
        print errormsg
        print '  ' + fname + " trajectory file: '" + trajfile + "' does not exist !!"
        quit(-1)

    objfile = NetCDFFile(ncfile, 'r')
    lonobj = objfile.variables[lonn]
    latobj = objfile.variables[latn]
    timobj = objfile.variables[timn]

    if varn.find(',') != -1:
        varns = varn.split(',')
    else:
        if varn == 'all':
            varns = objfile.variables
        else:
            varns = [varn]

    lonv, latv = lonlat2D(lonobj[:],latobj[:])

    dimx = lonv.shape[1]
    dimy = lonv.shape[0]

    timv = timobj[:]

# Selecting accordingly a trajectory
##
    Ttraj = file_nlines(trajfile,'#')
    if timekind == 'wrf':
        dimt = objfile.variables[timn].shape[0] 
    else:
        dimt = objfile.variables[timn].shape

# Removing this checking
#    if Tbeg + Ttraj > dimt:
#        print errormsg
#        print '  ' + fname + ': trajectory has ', Ttraj, ' time steps and starts ' + \
#        ' at',Tbeg,' and data',varobj.shape[0], '" !!!!!'
#        quit(-1)

    print '    ' + fname + ': Number of time-steps in trajectory file: ',Ttraj

    trajobj = open(trajfile,'r')

# Trajectory values/slices
##
# This is how we're going to proceed:
#    Creation of 1 matrix and 1 dictionay with the grid points where values have to be taken
#      trjradii(dimt,Nangle,Nrad,2): x,y pairs at each radii, angle and time step. 
#        Ditance interpolation might be required!
#      SQtrjradii(dimt,2): x,y pairs at each radii, number of pairs (Npair) and time
#        step. Flip/rotation of points might be required!

    trjradii = np.zeros((dimt, Nangle, radii, 2), dtype = int)
    trjSQradii = {}

    TOTradii = []

    iline = 0
    it = 0

    trajpos = np.zeros((Ttraj,Nangle,radii), dtype=np.float)
    gtrajvals = np.zeros((Ttraj,3), dtype=int)
    trajvals = np.zeros((Ttraj,3), dtype=np.float)

# Grid position at each time-step and angle
#    varvalst = np.ones((Ttraj, Nangle, radii, 2), dtype=np.float)*fillValue
#    varvalstSQ = np.zeros((Ttraj, radii, radii), dtype=bool)

    it = 0
    iline = 0
    for line in trajobj:

## Skipping first line
##        if not iline == 0:
##        it = iline - 1
##        it = iline

# Slicing brings to reduce 1 time-step.... ???
        if line[0:1] != '#':
            gtrajvals[it,0] = Tbeg + iline
            gtrajvals[it,1] = int(line.split(' ')[1])
            gtrajvals[it,2] = int(line.split(' ')[2])
            print it,'t:',gtrajvals[it,0],'x y:', gtrajvals[it,1], gtrajvals[it,2]
        
            if timekind == 'wrf':
                gdate = datetimeStr_conversion(timv[gtrajvals[it,0]],'WRFdatetime',  \
                  'matYmdHMS')
                trajvals[it,0] = realdatetime1_CFcompilant(gdate, '19491201000000',  \
                  'hours')

                tunits = 'hours since 1949-12-01 00:00:00'
            elif timekind == 'cf':
                trajvals[it,0] = timv[gtrajvals[it,0]]
                tunits = timobj.getncattr('units')
            else:
                print errormsg
                print '  ' + fname + ' time kind: "' + timekind + '" not ready !!'
                quit(-1)

#            print iline, it,'time:',trajvals[it,0],'lon lat:', trajvals[it,1],       \
#              trajvals[it,2]

# Assuming time as the first dimension in a fortran like way (t=0 as 1)
#            trajcut[0] = tstept - 1
# Assuming time as the first dimension in a C/python like way (t=0)

            posangle = np.zeros((radii,2), dtype=np.float)

            trjradii[it,:,:,:], trjSQradii[it] = radii_points(gtrajvals[it,1],        \
              gtrajvals[it,2],radii,Nangle,dimx,dimy)
            if it == 0: 
                TOTradii = list(trjSQradii[it].keys())
            else:
                for ir in trjSQradii[it].keys():
                    if searchInlist(TOTradii,ir): TOTradii.append(ir)
            it = it + 1
            iline = iline + 1


    trajobj.close()
# Creation of the netCDF file
##
    NtotSQradii = len(TOTradii)
    TOTSQradii = sorted(TOTradii)
    print '  ' + fname + ':',NtotSQradii,' squared radii:',TOTSQradii

    if varn.find(',') != -1:
        varnS = 'multi-var'
    else:
        varnS = varn.replace(',','-')

    ofile = 'tevolradiitraj_' + varnS + '.nc'
    objofile = NetCDFFile(ofile, 'w')

    boxs = radii*2+1
# Dimensions
    newdim = objofile.createDimension('x', boxs)
    newdim = objofile.createDimension('y', boxs)
    newdim = objofile.createDimension('time', None)
    newdim = objofile.createDimension('radii', radii)
    newdim = objofile.createDimension('SQradii', NtotSQradii)

    stsn = ['min', 'max', 'mean', 'mean2', 'stdev', 'ac']
    vstlname = ['minimum value within', 'maximum value within', 'mean value within', \
      'squared mean value within', 'standard deviation value within',                \
      'accumulated value within']
    Nsts = len(stsn)
    statnames = []
    cstatnames = []
    for i in range(Nsts):
        statnames.append(stsn[i] + 'radii')
        cstatnames.append(stsn[i] + 'SQradii')

# Getting values
##
    ivar = 0
    box2=0

    for vn in varns:
        vnst = variables_values(vn)[0]
        if not searchInlist(objfile.variables, vn):
            print errormsg
            print '  ' + fname + ": variable name '" + vn + "' is not in file " +    \
              ncfile + '" !!!!!'
            quit(-1)

        varobj = objfile.variables[vn]
        Nvardims = len(varobj.shape)

        print '  ' + fname + ": getting '" + vn + "' ... .. ." 

        slicev = []
        slice2D = []
        slicevnoT = []
        cslicev = []
        cslice2D = []
        cslicevnoT = []

        if Nvardims == 4:
# Too optimistic, but at this stage...
            if not objofile.dimensions.has_key('z'):
                varzobj = objfile.variables[zn]
                if len(varzobj.shape) == 1:
                    dimz = varzobj.shape
                    zvals = varzobj[:]
                elif len(varzobj.shape) == 2:
                    dimz = varzobj.shape[1]
                    zvals = varzobj[0,:]
                elif len(varzobj.shape) == 3:
                    dimz = varzobj.shape[2]
                    zvals = varzobj[0,0,:]

                objofile.createDimension('z', dimz)
                newvar = objofile.createVariable(zn, 'f4', ('z'),fill_value=fillValue)
                if searchInlist(varzobj.ncattrs(),'standard_name'):
                    vsname = varzobj.getncattr('standard_name')
                else:
                    vsname = variables_values(zn)[1]
                if searchInlist(varzobj.ncattrs(),'long_name'):
                    vlname = varzobj.getncattr('long_name')
                else:
                    vlname = variables_values(zn)[4].replace('|',' ')
                if searchInlist(varzobj.ncattrs(),'units'):
                    vunits = varzobj.getncattr('units')
                else:
                    vunits = variables_values(zn)[5].replace('|',' ')
    
                newattr = basicvardef(newvar, vsname, vlname, vunits)
                newvar[:] = zvals
 
            varvals = np.ones(tuple([Ttraj,dimz,boxs,boxs]), dtype=np.float)
            lonvals = np.ones(tuple([Ttraj,boxs,boxs]), dtype=np.float)
            latvals = np.ones(tuple([Ttraj,boxs,boxs]), dtype=np.float)
            radiivarvals = np.ones(tuple([Ttraj,dimz,radii]), dtype=np.float)*fillValueF
            SQradiivarvals = np.ones(tuple([Ttraj,dimz,NtotSQradii]), dtype=np.float)*fillValueF

# One dimension plus for the values at the center of the trajectory
            statvarvals = np.ones(tuple([Ttraj,dimz,Nsts+1]), dtype=np.float)
            rstatvarvals = np.ones(tuple([Ttraj,dimz,Nsts+1]), dtype=np.float)

            for it in range(Ttraj):
                it0 = Tbeg + it
# Radii values
# trjradii[it,:,:,:], trjSQradii[it]
                for ir in range(radii):
                    for ia in range(Nangle):
                        xp = trjradii[it,ia,ir,0]
                        yp = trjradii[it,ia,ir,1]
                        xpI = int(xp*1.)
                        ypI = int(yp*1.)
                        print 'xp yp:',xp,yp,'xpI ypI:',xpI,ypI
                        quit()
                        mean = 0. 
                        for iz in range(dimz):
                            SWv = varobj[it0,iz,ypI,xpI]
                            SEv = varobj[it0,iz,ypI,xpI+1]
                            NWv = varobj[it0,iz,ypI+1,xpI]
                            NEv = varobj[it0,iz,ypI+1,xpI+1]
                            val = hor_weight_int(SEv, SWv, NEv, NWv, xp-xpI, yp-ypI)
                            print 'Lluis hor_weight_int(',SEv,',', SWv,',', NEv,',', NWv,',', xp-xpI,',', yp-ypI,')'
                            print val
                            mean = mean + val 
                        print 'mean:',mean
                        quit()

                slicev = []
                slice2D = []
                slicevnoT = []
                cslicev = []
                cslice2D = []
                cslice2Dhor = []
                cslicevnoT = []
                cslicevnoThor = []

                slicev.append(gtrajvals[it,0])
                if gtrajvals[it,2]-box2 < 0 or gtrajvals[it,2]+box2 + 1 > dimy + 1   \
                  or gtrajvals[it,1]-box2 < 0 or gtrajvals[it,1]+box2 + 1 > dimx +1:
# box values
                    slicev.append(slice(0,dimz))
                    slicev.append(slice(yrangeslice[it][0],yrangeslice[it][1]))
                    slicev.append(slice(xrangeslice[it][0],xrangeslice[it][1]))

                    slicevnoT.append(slice(0,dimz))
                    slicevnoT.append(slice(yrangeslice[it][0],yrangeslice[it][1]))
                    slicevnoT.append(slice(xrangeslice[it][0],xrangeslice[it][1]))

                    slice2D.append(slice(0,dimz))
                    slice2D.append(slice(0,yrangeslice[it][1]-yrangeslice[it][0]))
                    slice2D.append(slice(0,xrangeslice[it][1]-xrangeslice[it][0]))

                    rvarvalst = np.ones((dimz, Nrad*2+1, Nrad*2+1),dtype=np.float)*  \
                      fillValue

                    varvalst[tuple(slice2D)] = varobj[tuple(slicev)]
                    varvals[it,:,:,:] = varvalst
    
# box stats values
                    maskedvals = ma.masked_values (varvalst, fillValue)
                    maskedvals2 = maskedvals*maskedvals
                    for iz in range(dimz):
                        statvarvals[it,iz,0] = varvalst[iz,box2,box2]
                        statvarvals[it,iz,1] = np.min(varvalst[iz,:,:])
                        statvarvals[it,iz,2] = np.max(varvalst[iz,:,:])
                        statvarvals[it,iz,3] = np.mean(varvalst[iz,:,:])
                        statvarvals[it,iz,4] = maskedvals2[iz,:,:].mean()
                        statvarvals[it,iz,5] = np.sqrt(statvarvals[it,iz,4] -        \
                          statvarvals[it,iz,3]*statvarvals[it,iz,3])
                        statvarvals[it,iz,6] = np.sum(varvalst[iz,:,:])

                else:
                    slicev.append(slice(0,dimz))
                    slicev.append(slice(gtrajvals[it,2]-box2, gtrajvals[it,2]+box2+1))
                    slicev.append(slice(gtrajvals[it,1]-box2, gtrajvals[it,1]+box2+1))
                    slicevnoT.append(slice(0,dimz))
                    slicevnoT.append(slice(gtrajvals[it,2]-box2, gtrajvals[it,2]+    \
                      box2+1))
                    slicevnoT.append(slice(gtrajvals[it,1]-box2, gtrajvals[it,1]+    \
                      box2+1))
                    slice2D.append(slice(0,dimz))
                    slice2D.append(slice(gtrajvals[it,2]-box2, gtrajvals[it,2] +     \
                      box2 + 1))
                    slice2D.append(slice(gtrajvals[it,1]-box2, gtrajvals[it,1] +     \
                      box2 + 1))

                    varvalst = varobj[tuple(slicev)]
# box values

                    varvals[it,:,:,:] = varvalst
#                    print 'values at time t______'
#                    print varvalst

# box stats values
                    for iz in range(dimz):
                        statvarvals[it,:,0] = varvalst[:,box2,box2]
                        statvarvals[it,iz,1] = np.min(varvalst[iz,:,:])
                        statvarvals[it,iz,2] = np.max(varvalst[iz,:,:])
                        statvarvals[it,iz,3] = np.mean(varvalst[iz,:,:])
                        statvarvals[it,iz,4] = np.mean(varvalst[iz,:,:]*             \
                          varvalst[iz,:,:])
                        statvarvals[it,iz,5] = np.sqrt(statvarvals[it,iz,4] -        \
                          statvarvals[it,iz,3]*statvarvals[it,iz,3])
                        statvarvals[it,iz,6] = np.sum(varvalst[iz,:,:])

# Circle values
                cslicev.append(gtrajvals[it,0])
                if gtrajvals[it,2]-Nrad < 0 or gtrajvals[it,2]+Nrad + 1 >= dimy       \
                  or gtrajvals[it,1]-Nrad < 0 or gtrajvals[it,1]+Nrad + 1 >= dimx:

                    maxx = np.min([cxrangeslice[it][1], dimx])
                    maxy = np.min([cyrangeslice[it][1], dimy])
                    cslicev.append(slice(0,dimz))
                    cslicev.append(slice(cyrangeslice[it][0], maxy))
                    cslicev.append(slice(cxrangeslice[it][0], maxx)) 

                    cslicevnoT.append(slice(0,dimz))
                    cslicevnoT.append(slice(cyrangeslice[it][0], cyrangeslice[it][1]))
                    cslicevnoT.append(slice(cxrangeslice[it][0], cxrangeslice[it][1]))

                    cslice2D.append(slice(0,dimz))
                    cslice2D.append(slice(0,maxy-cyrangeslice[it][0]))
                    cslice2D.append(slice(0,maxx-cxrangeslice[it][0]))
                    cslice2Dhor.append(slice(0, maxy - cyrangeslice[it][0]))
                    cslice2Dhor.append(slice(0, maxx -cxrangeslice[it][0]))

                    rvarvalst = np.ones((dimz,Nrad*2+1,Nrad*2+1),dtype=np.float)*    \
                      fillValue
                    rvarvalst[tuple(cslice2D)] = varobj[tuple(cslicev)]
                    for iz in range(dimz):
                        tslice = [slice(it,it)]+cslice2Dhor
                        zslice = [slice(iz,iz)]+cslice2Dhor
                        rvarvalst[tuple(zslice)] = np.where(circdist[tuple(tslice)] > \
                          np.float(Nrad), fillValue, rvarvalst[tuple(zslice)]) 

                    rvarvals[it,:,:,:] = rvarvalst

# circle stats values
                    maskedvals = ma.masked_values (rvarvalst, fillValue)
                    maskedvals2 = maskedvals*maskedvals
                    for iz in range(dimz):
                        rstatvarvals[it,iz,0] = varvalst[iz,box2,box2]
                        rstatvarvals[it,iz,1] = np.min(varvalst[iz,:,:])
                        rstatvarvals[it,iz,2] = np.max(varvalst[iz,:,:])
                        rstatvarvals[it,iz,3] = np.mean(varvalst[iz,:,:])
                        rstatvarvals[it,iz,4] = maskedvals2[iz,:,:].mean()
                        rstatvarvals[it,iz,5] = np.sqrt(rstatvarvals[it,iz,4] -      \
                          rstatvarvals[it,iz,3]*rstatvarvals[it,iz,3])
                        rstatvarvals[it,iz,6] = np.sum(varvalst[iz,:,:])

                else:
                    cslicev.append(slice(0,dimz))
                    cslicev.append(slice(gtrajvals[it,2]-Nrad,gtrajvals[it,2]+Nrad+1))
                    cslicev.append(slice(gtrajvals[it,1]-Nrad,gtrajvals[it,1]+Nrad+1))
                    cslicevnoT.append(slice(0,dimz))
                    cslicevnoT.append(slice(gtrajvals[it,2]-Nrad, gtrajvals[it,2]+   \
                      Nrad+1))
                    cslicevnoT.append(slice(gtrajvals[it,1]-Nrad, gtrajvals[it,1]+   \
                      Nrad+1))
                    cslicevnoThor.append(slice(gtrajvals[it,2]-Nrad,                 \
                      gtrajvals[it,2] + Nrad+1))
                    cslicevnoThor.append(slice(gtrajvals[it,1]-Nrad,                 \
                      gtrajvals[it,1] + Nrad+1))
                    cslice2D.append(slice(0,dimz))
                    cslice2D.append(slice(gtrajvals[it,2]-Nrad,gtrajvals[it,2] +     \
                      Nrad+1))
                    cslice2D.append(slice(gtrajvals[it,1]-Nrad,gtrajvals[it,1] +     \
                      Nrad+1))

                    rvarvalst = varobj[tuple(cslicev)]
# circle values
                    for iz in range(dimz):
                        tslice = [it]+cslicevnoThor
                        rvarvalst[iz,:,:] = np.where(circdist[tuple(tslice)] >       \
                          np.float(Nrad), fillValue, rvarvalst[iz,:,:]) 

                    rvarvals[it,:,:,:] = rvarvalst

# circle stats values
                    maskedvals = ma.masked_values (rvarvalst, fillValue)
                    maskedvals2 = maskedvals*maskedvals
                    for iz in range(dimz):
                        rstatvarvals[it,iz,0] = rvarvalst[iz,Nrad,Nrad]
                        rstatvarvals[it,iz,1] = maskedvals[iz,:,:].min()
                        rstatvarvals[it,iz,2] = maskedvals[iz,:,:].max()
                        rstatvarvals[it,iz,3] = maskedvals[iz,:,:].mean()
                        rstatvarvals[it,iz,4] = maskedvals2[iz,:,:].mean()
                        rstatvarvals[it,iz,5] = np.sqrt(rstatvarvals[it,iz,4] -      \
                          rstatvarvals[it,iz,3]*rstatvarvals[it,iz,3])
                        rstatvarvals[it,iz,6] = maskedvals[iz,:,:].sum()

#            print 'statistics:',rstatvarvals[it,:] 

# variable box values
            newvar = objofile.createVariable(vnst + 'box', 'f4', ('time','z','y','x'),\
              fill_value=fillValue)
            if searchInlist(varobj.ncattrs(),'standard_name'):
                vsname = varobj.getncattr('standard_name')
            else:
                vsname = variables_values(vn)[1]
            if searchInlist(varobj.ncattrs(),'long_name'):
                vlname = varobj.getncattr('long_name')
            else:
                vlname = variables_values(vn)[4].replace('|',' ')
            if searchInlist(varobj.ncattrs(),'units'):
                vunits = varobj.getncattr('units')
            else:
                vunits = variables_values(vn)[5].replace('|',' ')

            newattr = basicvardef(newvar, vsname, vlname, vunits)
            newattr = newvar.setncattr('projection','lon lat')
            newvar[:] = varvals

# center of the trajectory
            newvar = objofile.createVariable('trj_' + vnst, 'f', ('time','z'),     \
              fill_value=fillValue)
            newattr = basicvardef(newvar, 'trj_' + vsname, 'value along the ' +    \
              'trajectory of '+ vn, vunits)
            newvar[:] = statvarvals[:,:,0]

# variable box statistics
            ist = 0
            for statn in statnames:
                newvar = objofile.createVariable(statn + '_' + vnst,'f',('time','z'),\
                  fill_value=fillValue)
                newattr = basicvardef(newvar, statn + '_' + vsname, vstlname[ist] +  \
                  ' the box ('+str(boxs)+'x'+str(boxs)+') of ' + vnst, vunits)
                newvar[:] = statvarvals[:,:,ist+1]
#                newattr = set_attributek(newvar,'_FillValue',fillValue,'npfloat')
                ist = ist + 1
        
# variable circle values
            newvar = objofile.createVariable(vnst + 'circle','f4',('time','z','yr',    \
              'xr'), fill_value=fillValue)
            if searchInlist(varobj.ncattrs(),'standard_name'):
                vsname = varobj.getncattr('standard_name')
            else:
                vsname = variables_values(vn)[1]
            if searchInlist(varobj.ncattrs(),'long_name'):
                vlname = varobj.getncattr('long_name')
            else:
                vlname = variables_values(vn)[4].replace('|',' ')
            if searchInlist(varobj.ncattrs(),'units'):
                vunits = varobj.getncattr('units')
            else:
                vunits = variables_values(vn)[5].replace('|',' ')

            newattr = basicvardef(newvar, vsname, vlname, vunits)
            newattr = newvar.setncattr('projection','lon lat')
            newvar[:] = rvarvals

# variable circle statistics
            ist = 0
            for statn in cstatnames:
                newvar = objofile.createVariable(statn + '_' + vnst,'f',('time','z'),\
                  fill_value=fillValue)
                newattr = basicvardef(newvar, statn + '_' + vsname, vstlname[ist] +  \
                  ' the circle of radius ('+ str(circler)+') of ' + vnst, vunits)
                newvar[:] = rstatvarvals[:,:,ist+1]
#                newattr = set_attributek(newvar,'_FillValue',fillValue,'npfloat')
                ist = ist + 1

        elif Nvardims == 3:
# Too optimistic, but at this stage...
            dimt = varobj.shape[0]
 
            Nrad=1
            varvals = np.ones(tuple([Ttraj,boxs,boxs]), dtype=np.float)
            lonvals = np.ones(tuple([Ttraj,boxs,boxs]), dtype=np.float)
            latvals = np.ones(tuple([Ttraj,boxs,boxs]), dtype=np.float)
            rvarvals = np.ones(tuple([Ttraj,Nrad*2+1,Nrad*2+1]), dtype=np.float)
            rlonvals = np.ones(tuple([Ttraj,Nrad*2+1,Nrad*2+1]), dtype=np.float)
            rlatvals = np.ones(tuple([Ttraj,Nrad*2+1,Nrad*2+1]), dtype=np.float)

# One dimension plus for the values at the center of the trajectory
            statvarvals = np.ones(tuple([Ttraj,Nsts+1]), dtype=np.float)
            rstatvarvals = np.ones(tuple([Ttraj,Nsts+1]), dtype=np.float)

            for it in range(Ttraj):
                it0 = Tbeg + it

                slicev = []
                slice2D = []
                slicevnoT = []
                cslicev = []
                cslice2D = []
                cslicevnoT = []
                cslicevC = []

                slicev.append(gtrajvals[it,0])
                if gtrajvals[it,2]-box2 < 0 or gtrajvals[it,2]+box2 + 1 > dimy + 1   \
                  or gtrajvals[it,1]-box2 < 0 or gtrajvals[it,1]+box2 + 1 > dimx + 1:
# box values
                    slicev.append(slice(yrangeslice[it][0],yrangeslice[it][1]))
                    slicev.append(slice(xrangeslice[it][0],xrangeslice[it][1]))

                    slicevnoT.append(slice(yrangeslice[it][0],yrangeslice[it][1]))
                    slicevnoT.append(slice(xrangeslice[it][0],xrangeslice[it][1]))

                    slice2D.append(slice(0,yrangeslice[it][1]-yrangeslice[it][0]))
                    slice2D.append(slice(0,xrangeslice[it][1]-xrangeslice[it][0]))

                    rvarvalst = np.ones((Nrad*2+1, Nrad*2+1),dtype=np.float)*fillValue

                    varvalst[tuple(slice2D)] = varobj[tuple(slicev)]
                    varvals[it,:,:] = varvalst
    
# box stats values
                    maskedvals = ma.masked_values (varvalst, fillValue)
                    statvarvals[it,0] = varvalst[box2,box2]
                    statvarvals[it,1] = maskedvals.min()
                    statvarvals[it,2] = maskedvals.max()
                    statvarvals[it,3] = maskedvals.mean()
                    maskedvals2 = maskedvals*maskedvals
                    statvarvals[it,4] = maskedvals2.mean()
                    statvarvals[it,5] = np.sqrt(statvarvals[it,4] -                   \
                      statvarvals[it,3]*statvarvals[it,3])
                    statvarvals[it,6] = maskedvals.sum()

                    varvalst[tuple(slice2D)] = lonv[tuple(slicevnoT)]
                    lonvals[it,:,:] = varvalst
                    varvalst[tuple(slice2D)] = latv[tuple(slicevnoT)]           
                    latvals[it,:,:] = varvalst

                else:
                    slicev.append(slice(gtrajvals[it,2]-box2, gtrajvals[it,2]+box2+1))
                    slicev.append(slice(gtrajvals[it,1]-box2, gtrajvals[it,1]+box2+1))
                    slicevnoT.append(slice(gtrajvals[it,2]-box2, gtrajvals[it,2]+    \
                      box2+1))
                    slicevnoT.append(slice(gtrajvals[it,1]-box2, gtrajvals[it,1]+    \
                      box2+1))

                    slice2D.append(slice(gtrajvals[it,2]-box2, gtrajvals[it,2]+box2 +\
                      1))
                    slice2D.append(slice(gtrajvals[it,1]-box2, gtrajvals[it,1]+box2 +\
                      1))

                    varvalst = varobj[tuple(slicev)]
# box values

                    varvals[it,:,:] = varvalst
#                    print 'values at time t______'
#                    print varvalst

# box stats values
                    statvarvals[it,0] = varvalst[box2,box2]
                    statvarvals[it,1] = np.min(varvalst)
                    statvarvals[it,2] = np.max(varvalst)
                    statvarvals[it,3] = np.mean(varvalst)
                    statvarvals[it,4] = np.mean(varvalst*varvalst)
                    statvarvals[it,5] = np.sqrt(statvarvals[it,4] -                  \
                      statvarvals[it,3]*statvarvals[it,3])
                    statvarvals[it,6] = np.sum(varvalst)

                    varvalst = lonv[tuple(slicevnoT)]
                    lonvals[it,:,:] = varvalst
                    varvalst = latv[tuple(slicevnoT)]           
                    latvals[it,:,:] = varvalst

# Circle values
                cslicev.append(gtrajvals[it,0])
                if gtrajvals[it,2]-Nrad < 0 or gtrajvals[it,2]+Nrad + 1 >= dimy      \
                  or gtrajvals[it,1]-Nrad < 0 or gtrajvals[it,1]+Nrad + 1 >= dimx:
                    maxx = np.min([cxrangeslice[it][1], dimx])
                    maxy = np.min([cyrangeslice[it][1], dimy])
                    cslicev.append(slice(cyrangeslice[it][0],maxy))
                    cslicev.append(slice(cxrangeslice[it][0],maxx))

                    cslicevnoT.append(slice(cyrangeslice[it][0],cyrangeslice[it][1]))
                    cslicevnoT.append(slice(cxrangeslice[it][0],cxrangeslice[it][1]))

                    cslice2D.append(slice(0,maxy - cyrangeslice[it][0]))
                    cslice2D.append(slice(0,maxx - cxrangeslice[it][0]))

                    rvarvalst = np.ones((Nrad*2+1,Nrad*2+1),dtype=np.float)*fillValue
                    rvarvalst[tuple(cslice2D)] = varobj[tuple(cslicev)]
                    rvarvalst[tuple(cslice2D)] = np.where(circdist[tuple(cslicev)] >\
                      np.float(Nrad), fillValue, rvarvalst[tuple(cslice2D)])

                    rvarvals[it,:,:] = rvarvalst

# circle stats values
                    maskedvals = ma.masked_values (rvarvalst, fillValue)
                    rstatvarvals[it,0] = rvarvalst[Nrad,Nrad]
                    rstatvarvals[it,1] = maskedvals.min()
                    rstatvarvals[it,2] = maskedvals.max()
                    rstatvarvals[it,3] = maskedvals.mean()
                    maskedvals2 = maskedvals*maskedvals
                    rstatvarvals[it,4] = maskedvals2.mean()
                    rstatvarvals[it,5] = np.sqrt(rstatvarvals[it,4] -                \
                      rstatvarvals[it,3]*rstatvarvals[it,3])
                    rstatvarvals[it,6] = maskedvals2.sum()

                else:
                    cslicev.append(slice(gtrajvals[it,2]-Nrad,gtrajvals[it,2]+Nrad+1))
                    cslicev.append(slice(gtrajvals[it,1]-Nrad,gtrajvals[it,1]+Nrad+1))
                    cslicevnoT.append(slice(gtrajvals[it,2]-Nrad, gtrajvals[it,2]+    \
                      Nrad+1))
                    cslicevnoT.append(slice(gtrajvals[it,1]-Nrad, gtrajvals[it,1]+    \
                      Nrad+1))

                    cslice2D.append(slice(gtrajvals[it,2]-Nrad,gtrajvals[it,2]+Nrad+1))
                    cslice2D.append(slice(gtrajvals[it,1]-Nrad,gtrajvals[it,1]+Nrad+1))

                    cslicevC.append(it)
                    cslicevC.append(slice(gtrajvals[it,2]-Nrad,gtrajvals[it,2]+Nrad+1))
                    cslicevC.append(slice(gtrajvals[it,1]-Nrad,gtrajvals[it,1]+Nrad+1))

                    rvarvalst = varobj[tuple(cslicev)]
                    cdist = circdist[tuple(cslicevC)]
# circle values
                    rvarvalst = np.where(cdist > np.float(Nrad),fillValue,rvarvalst)
                    rvarvals[it,:,:] = rvarvalst

# circle stats values
                    maskedvals = ma.masked_values (rvarvalst, fillValue)
                    rstatvarvals[it,0] = rvarvalst[Nrad,Nrad]
                    rstatvarvals[it,1] = maskedvals.min()
                    rstatvarvals[it,2] = maskedvals.max()
                    rstatvarvals[it,3] = maskedvals.mean()
                    maskedvals2 = maskedvals*maskedvals
                    rstatvarvals[it,4] = maskedvals2.mean()
                    rstatvarvals[it,5] = np.sqrt(rstatvarvals[it,4] -                \
                      rstatvarvals[it,3]*rstatvarvals[it,3])
                    rstatvarvals[it,6] = maskedvals.sum()

#            print 'statistics:',rstatvarvals[it,:] 

# variable box values
            newvar = objofile.createVariable(vnst + 'box', 'f4', ('time', 'y', 'x'), \
              fill_value=fillValue)
            if searchInlist(varobj.ncattrs(),'standard_name'):
                vsname = varobj.getncattr('standard_name')
            else:
                vsname = variables_values(vn)[1]
            if searchInlist(varobj.ncattrs(),'long_name'):
                vlname = varobj.getncattr('long_name')
            else:
                vlname = variables_values(vn)[4].replace('|',' ')
            if searchInlist(varobj.ncattrs(),'units'):
                vunits = varobj.getncattr('units')
            else:
                vunits = variables_values(vn)[5].replace('|',' ')

            newattr = basicvardef(newvar, vsname, vlname, vunits)
            newattr = newvar.setncattr('projection','lon lat')
            newvar[:] = varvals

# center of the trajectory
            newvar = objofile.createVariable('trj_' + vnst, 'f', ('time'),           \
              fill_value=fillValue)
            newattr = basicvardef(newvar, 'trj_' + vsname, 'value along the ' +      \
              'trajectory of '+ vnst, vunits)
            newvar[:] = statvarvals[:,0]

# variable box statistics
            ist = 0
            for statn in statnames:
                newvar = objofile.createVariable(statn + '_' + vnst, 'f', ('time'),  \
                  fill_value=fillValue)
                newattr = basicvardef(newvar, statn + '_' + vsname, vstlname[ist] +  \
                  ' the box ('+str(boxs)+'x'+str(boxs)+') of ' + vnst, vunits)
                newvar[:] = statvarvals[:,ist+1]
#                newattr = set_attributek(newvar,'_FillValue',fillValue,'npfloat')
                ist = ist + 1
        
# variable circle values
            newvar = objofile.createVariable(vnst + 'circle','f4',('time','yr','xr'),\
              fill_value=fillValue)
            if searchInlist(varobj.ncattrs(),'standard_name'):
                vsname = varobj.getncattr('standard_name')
            else:
                vsname = variables_values(vn)[1]
            if searchInlist(varobj.ncattrs(),'long_name'):
                vlname = varobj.getncattr('long_name')
            else:
                vlname = variables_values(vn)[4].replace('|',' ')
            if searchInlist(varobj.ncattrs(),'units'):
                vunits = varobj.getncattr('units')
            else:
                vunits = variables_values(vn)[5].replace('|',' ')

            newattr = basicvardef(newvar, vsname, vlname, vunits)
            newattr = newvar.setncattr('projection','lon lat')
            newvar[:] = rvarvals

# variable circle statistics
            ist = 0
            for statn in cstatnames:
                newvar = objofile.createVariable(statn + '_' + vnst, 'f', ('time'),  \
                  fill_value=fillValue)
                newattr = basicvardef(newvar, statn + '_' + vsname, vstlname[ist] +  \
                  ' the circle of radius ('+ str(circler)+') of ' + vnst, vunits)
                newvar[:] = rstatvarvals[:,ist+1]
#                newattr = set_attributek(newvar,'_FillValue',fillValue,'npfloat')
                ist = ist + 1
        else:
# Other variables
            print warnmsg
            print '  ' + fname + ": variable '" + vn + "' shape:",varobj.shape,' not'\
              + ' ready!!'
            print '    skipping variable'
            if len(varns) == 1:
                objofile.close()
                sub.call(['rm', ofile])
                print '    uniq variable! removing file and finishing program'
                quit()

        if not objofile.variables.has_key('trlon') and Nvardims == 3:
# var dimensions
            newvar = objofile.createVariable('trlon', 'f8', ('time'))
            newattr = basicvardef(newvar,'trlon','trajectory longitude',             \
              'degrees west_east')
            newvar[:] = trajvals[:,1]

            newvar = objofile.createVariable('trlat', 'f8', ('time'))
            newattr = basicvardef(newvar,'trlat','trajectory latitude',              \
              'degrees north_south')
            newvar[:] = trajvals[:,2]

            newvar = objofile.createVariable('time', 'f8', ('time'))
            newattr = basicvardef(newvar, 'time', 'time', tunits)
            newvar[:] = trajvals[:,0]

            newvar = objofile.createVariable('lon', 'f8', ('time', 'y', 'x'),        \
              fill_value=fillValue)
            newattr = basicvardef(newvar, 'longitude', 'longitude',                  \
              'degrees west_east')
            newvar[:] = lonvals

            newvar = objofile.createVariable('lat', 'f8', ('time', 'y', 'x'),        \
              fill_value=fillValue)
            newattr = basicvardef(newvar, 'latitude', 'latitude',                    \
              'degrees north_south')
            newvar[:] = latvals
           
        ivar = ivar + 1

# global attributes
    objofile.setncattr('author', 'L. Fita')
    objofile.setncattr('institution', 'Laboratire de Meteorologie Dynamique')
    objofile.setncattr('university', 'Pierre Marie Curie - Jussieu')
    objofile.setncattr('center', 'Centre National de Recherches Scientifiques')
    objofile.setncattr('city', 'Paris')
    objofile.setncattr('country', 'France')
    objofile.setncattr('script', 'nc_var_tools.py')
    objofile.setncattr('function', 'compute_tevolboxtraj')
    objofile.setncattr('version', '1.0')
    objofile.setncattr('data_file',ncfile)

    objfile.close()

    objofile.sync()
    objofile.close()

    print '  ' + fname + ': successful creation of file "' + ofile + '" !!!'

    return 

#        [trajfile]: ASCII file with the trajectory ('#' not readed)
#          [time] [xpoint] [ypoint]
#        [Tbeg]: equivalent first time-step of the trajectory within the netCDF file
#        [lonname],[latname],[zname],[timename]: longitude, latitude, z and time variables names
#        [timekind]: kind of time
#          'cf': cf-compilant
#          'wrf': WRF kind
#        [Nangle]: Number of angles
#        [radii]: length in grid points of the radius

#compute_tevolboxtraj_radialsec('/bdd/PCER/workspace/lfita/etudes/FF/medic051215_2km/run/trajectory_shorten.dat@0,XLONG,XLAT,ZNU,Times,wrf,4,2',       \
#  '/bdd/PCER/workspace/lfita/etudes/FF/medic051215_2km/run/wrfout/wrfout_d02_2005-12-13_00:00:00', 'QVAPOR')
#quit()

def DatesFiles(values, ncfile, varn):
    """ Function to find different time values on a series of WRF files in a folder
      [values]= [dates],[folder]
        [dates]: ':' list of [YYYY][MM][DD][HH][MI][SS] dates
        [fold]: folder with the location of the netCDF files
      [ncfile]= header of the name of the files to concatenate [ncfile]*
      [varn]= name of the variable Time ('WRFt', for WRF time)
    """
    import subprocess as sub
    import datetime as dt
    fname='DatesFiles'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print DatesFiles.__doc__
        quit()

    arguments = '[dates],[fold]'
    check_arguments(fname, values, arguments, ',')

    dates = values.split(',')[0].split(':')
    fold = values.split(',')[1]

    confiles = files_folder(fold,ncfile)
    Nfiles = len(confiles)

    print '  ' + fname +': looking on:',Nfiles,'files'

# Opening all files and getting times
    ncobjs = {}
    for filen in confiles:
        filename = fold + '/' + filen
        ncf = NetCDFFile(filename, 'r')
        datesv = []
        if varn == 'WRFt':
            fdates = ncf.variables['Times'][:]
            for it in range(fdates.shape[0]):
                datesv.append(datetimeStr_conversion(fdates[it,:], 'WRFdatetime',    \
                  'YmdHMS'))
        else:
            tunits = ncf.variables[varn].getncattr('units')
            fdates = ncf.variables[varn][:]
            for it in range(fdates.shape[0]):
                datesv.append(datetimeStr_conversion(fdates[it], 'cfTime,' + tunits ,\
                   'YmdHMS'))

        ncobjs[filename] = datesv
        ncf.close()

# Computing time-step inside files (assuming regular)
        if filen == confiles[0]:
            ini=datesv[0]
            end=datesv[1]

            iniT = dt.datetime.strptime(ini,'%Y%m%d%H%M%S')
            endT = dt.datetime.strptime(end,'%Y%m%d%H%M%S')

            DT = endT - iniT
            diffT = DT.total_seconds()
            print '  ' + fname + ': seconds between time-steps in files:', diffT

    Efounddates = {}
    Cfounddates = {}
    for dtv in dates:
        foundclosest = False
        for fn in ncobjs.keys():
            if searchInlist(ncobjs[fn], dtv):
                istep = ncobjs[fn].index(dtv)

                print fname + 'Exact:',dtv,fn,istep,'(date, filname, time-step)'
                Efounddates[dtv] = [dtv,fn,istep]

            for it in ncobjs[fn]:
                iniT = dt.datetime.strptime(it,'%Y%m%d%H%M%S')
                endT = dt.datetime.strptime(dtv,'%Y%m%d%H%M%S')

                DT = endT - iniT
                diffitv = np.abs(DT.total_seconds())

                if diffT/2. >= diffitv:
                    istep = ncobjs[fn].index(it)
                    print fname + 'Closest:',dtv,fn,istep,diffitv,it,'(date, ' +     \
                      'filname, time-step, distance in seconds, closest date)'
                    Cfounddates[dtv] = [dtv,fn,istep,diffitv]
                    foundclosest = True
                    break

            if foundclosest: break
    return

def TimeSplitmat(values, ncfile, vn):
    """ Function to transform a file with CFtimes to a matrix [Nyear,Nmonth,Nday,Nhour,Nminute,Nsecond] 
      values= [tdim]:[tvdim]:[seltimes]
      tdim= name of the dimension time
      tvdim= name of the variable with the time values
      seltimes= ',' list of which times ('y', 'm', 'd', 'H','M', 'S') one wants to split the values
        desired final order
      ncfile= netcdf file to use
      vn= name of the variable, 'all' for all variables
    """
    import datetime as dt
    fname = 'TimeSplitmat'

    ofile = 'TimeSplitmat.nc'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print TimeSplitmat.__doc__
        quit()

    arguments = '[tdim]:[tvdim]:[seltimes]'
    check_arguments(fname, values, arguments, ':')

    tdim = values.split(':')[0]
    tvdim = values.split(':')[1]
    seltimes = values.split(':')[2]

    of = NetCDFFile(ncfile, 'r')

    stimes = seltimes.split(',')
    if len(stimes) != 2:
        print errormsg
        print fname + ': number of splitting times',len(stimes),'not ready!!'
        quit(-1)

    if vn == 'all':
        vns = of.variables.keys()
    else:
        vns = [vn]

    otime = of.variables[tvdim]
    dt = otime.shape[0]
    if not searchInlist(otime.ncattrs(), 'units'):
        print errormsg
        print '  ' + fname + ": varible time '" + dimtv + "' has not units!!"
        quit(-1)
    tunits = otime.getncattr('units')

    mattimes = CFtimes_datetime(of,tvdim)

    Nyears = len(np.unique(mattimes[:,0]))
    Nmonths = len(np.unique(mattimes[:,1]))
    Ndays = len(np.unique(mattimes[:,2]))
    Nhours = len(np.unique(mattimes[:,3]))
    Nminutes = len(np.unique(mattimes[:,4]))
    Nseconds = len(np.unique(mattimes[:,5]))
    
    newdimns = []
    newdimvs = []
    firstmat = -1
    secondmat = -1
    for st in stimes:
        if st == 'y': 
            newdimns.append('years')
            newdimvs.append(Nyears)
            if firstmat == -1: 
                firstmat = 0
            else:
                secondmat = 0
        elif st == 'm': 
            newdimns.append('months')
            newdimvs.append(Nmonths)
            if firstmat == -1: 
                firstmat = 1
            else:
                secondmat = 1
        elif st == 'd': 
            newdimns.append('days')
            newdimvs.append(Ndays)
            if firstmat == -1: 
                firstmat = 2
            else:
                secondmat = 2
        elif st == 'H': 
            newdimns.append('hours')
            newdimvs.append(Nhours)
            if firstmat == -1: 
                firstmat = 3
            else:
                secondmat = 3
        elif st == 'M': 
            newdimns.append('minutes')
            newdimvs.append(Nminutes)
            if firstmat == -1: 
                firstmat = 4
            else:
                secondmat = 4
        elif st == 'S': 
            newdimns.append('seconds')
            newdimvs.append(Nseconds)
            if firstmat == -1: 
                firstmat = 5
            else:
                secondmat = 5
        else: 
            print errormsg
            print '  ' + fname + ": selected time '" + st + "' not ready!!"
            quit(-1)

    print '  ' + fname + ':initial selection of:',newdimvs
    print '  ' + newdimns[0],':',np.unique(mattimes[:,firstmat])
    print '  ' + newdimns[1],':',np.unique(mattimes[:,secondmat])

# We can have still multiple values (for given days, multiple months...). Assuming 
#   30days months
    newdimvs[1] = dt/newdimvs[0]
    print '    re-arranged to:',newdimvs
    newtime = np.zeros(tuple(newdimvs), dtype=np.float)

# Openning new file
    onewfile = NetCDFFile(ofile, 'w')

# Dimensions
    newdim = onewfile.createDimension(newdimns[0], newdimvs[0])
    newdim = onewfile.createDimension(newdimns[1], newdimvs[1])
    newdim = onewfile.createDimension('time', None)

# Variable time
    newvar = onewfile.createVariable('time', 'f8', tuple(newdimns))
    newvar[:] = newtime
    basicvardef(newvar, 'time', 'time', tunits)

    splitS = seltimes.replace(',','')

    for Vn in vns:
        print Vn + '...'
        oVn = of.variables[Vn]

# Removing time dimension from the variable dimensions
        Vndims = oVn.dimensions
        if searchInlist(Vndims, tdim) and Vn != tvdim:
            varNOtdimns = []
            varNOtdimvs = []
            for idn in Vndims:
                if idn != tdim:
                    varNOtdimns.append(idn)
                    varNOtdimvs.append(len(of.dimensions[idn]))
                    if not searchInlist(onewfile.dimensions.keys(), idn):
                        newdim = onewfile.createDimension(idn,                       \
                          len(of.dimensions[idn]))

            newvarv = np.ones(tuple(newdimvs+varNOtdimvs), dtype=np.float)*fillValueF

            d1 = 0
            d2 = -1

            d1val = mattimes[0,firstmat]
            d2val = mattimes[0,secondmat]

            secondvals = []

            for ddt in range(dt):
                if mattimes[ddt,firstmat] > d1val: 
                    d1 = d1 + 1
                    d1val = mattimes[ddt,firstmat]
                    d2 = 0
                else:
                    d2 = d2 + 1
                    if d1 == 0: secondvals.append(mattimes[ddt,secondmat])
                
                slicevar = []
                slicenewvar = []

                slicenewvar.append(d1)
                slicenewvar.append(d2)
                for idn in Vndims:
                    if idn != tdim:
                        slicevar.append(slice(0,len(of.dimensions[idn])))
                        slicenewvar.append(slice(0,len(of.dimensions[idn])))
                    else:
                        slicevar.append(ddt)

#                print ddt,d1,d2,mattimes[ddt,:],'var:',slicevar,'new:',slicenewvar

                newvarv[tuple(slicenewvar)] = oVn[tuple(slicevar)]
                newtime[d1,d2] = otime[ddt]

            newvar = onewfile.createVariable(Vn + '_' + splitS, 'f',                 \
              tuple(newdimns + varNOtdimns), fill_value = fillValueF)
            newattr = newvar.setncattr('desc',  Vn + 'splitted by:' + newdimns[0] +  \
              ' & ' + newdimns[1])
            newvar[:] = newvarv
            onewfile.sync()
        elif Vn != tvdim:
            for dvn in Vndims: 
                if not searchInlist(onewfile.dimensions,dvn): 
                    dsize = len(of.dimensions[dvn])
                    newdim = onewfile.createDimension(dvn, dsize)
# From http://guziy.blogspot.fr/2014/01/netcdf4-python-copying-variables-from.html
            vartype = oVn.dtype
            newvar = onewfile.createVariable(Vn, vartype, Vndims)
            for attrn in oVn.ncattrs():
                attrv = oVn.getncattr(attrn)
                newattr = set_attribute(newvar, attrn, attrv)

            newvar[:] = oVn[:]

# Variable time
    newvar = onewfile.variables['time']
    newvar[:] = newtime

# Variables selection
    idn=0
    for newd in newdimns:
        print newd, onewfile.dimensions.keys()
        newvar = onewfile.createVariable(newd, 'f', (newd))
        if idn == 0:
            newvar[:] = np.unique(mattimes[:,firstmat])
        else:
            newvar[:] = secondvals

        set_attribute(newvar, 'desc', 'Selected ' + newdimns[idn])
        idn = idn + 1

# Global attributes
    onewfile.setncattr('script',  fname)
    onewfile.setncattr('version',  '1.0')
    onewfile.setncattr('author',  'L. Fita')
    newattr = set_attributek(onewnfile, 'institution', unicode('Laboratoire de M' +  \
      unichr(233) + 't' + unichr(233) + 'orologie Dynamique'), 'U')
    onewfile.setncattr('university',  'Pierre et Marie Curie')
    onewfile.setncattr('country',  'France')
    onewfile.setncattr('description',  'transform a file with CFtimes to a matrix ' +\
      '[Nyear,Nmonth,Nday,Nhour,Nminute,Nsecond]')

    onewfile.sync()
    onewfile.close()
    print fname + ": Successful writting of file '" + ofile + "' !!"

    return

#fileobj = NetCDFFile('/home/lluis/PY/ERAI_pl199501_130-133.nc', 'r')
#TimeSplitmat(fileobj, 'time', 'time', 'all', 'd,H')

def getvalues_lonlat(values, ncfile):
    """ Function to retrieve the values from the closest grid point to a set of longitude, latitude values
      values=[longitude]:[latitude]:[dnames]:[vdnames]
        [longitude]: value for the longitude
        [latitude]: value for the latitude
        [dnames]: [xdimname],[ydimname] names of the dimensions on the 'x' and 'y' axis
        [dvnames]: [xvdimname],[yvdimname] names of the variables with the values for
          the dimensions on the 'x' and 'y' axis
      ncfile= netcdf file to use
    """
    import subprocess as sub
    fname = 'getvalues_lonlat'

    ofile = fname + '.nc'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print getvalues_lonlat.__doc__
        quit()

    arguments = '[longitude]:[latitude]:[dnames]:[vdnames]'
    check_arguments(fname, values, arguments, ':')

    longitude = np.float(values.split(':')[0])
    latitude = np.float(values.split(':')[1])
    dnames = values.split(':')[2].split(',')
    dvnames = values.split(':')[3].split(',')

    onc = NetCDFFile(ncfile, 'r')

    for dn in dnames:
        if not searchInlist(onc.dimensions, dn):
            print errormsg
            print '  ' + fname + ": file '" + ncfile + "' does not have dimension '"+\
              dn + "' !!"
            quit(-1) 

    for vdn in dvnames:
        if not searchInlist(onc.variables, vdn):
            print errormsg
            print '  ' + fname + ": file '" + ncfile + "' does not have variable '"+ \
              vdn + "' !!"
            quit(-1) 

# Getting grid point localization
##
    lon2d, lat2d = lonlat2D(onc.variables[dvnames[0]], onc.variables[dvnames[1]])
    
    dimx = lon2d.shape[1]
    dimy = lon2d.shape[0]

    mappairs = np.ones((2), dtype=int)
    dist=np.sqrt((longitude - lon2d)**2. + (latitude - lat2d)**2.)
    mindist = np.min(dist)
    minydist, minxdist = index_mat(dist,mindist)
    mappairs[:] = [minydist, minxdist]

    print '  ' + fname + ': nearest point: ',mappairs, 'distance:', mindist

    onc.close()

    vals = dnames[1] + ',' + str(mappairs[1]) + ',' + str(mappairs[1]) + ',1@'
    vals = vals + dnames[0] + ',' + str(mappairs[0]) + ',' + str(mappairs[0]) + ',1'

    DataSetSection_multidims(vals, ncfile)
    of = ncfile.split('.')[0] + '_' +  dnames[1] + '_B' + str(mappairs[1]) + '-E' +  \
      str(mappairs[1]) + '-I1_' + dnames[0] + '_B' + str(mappairs[0]) + '-E' +       \
      str(mappairs[0]) + '-I1.nc'

    sub.call(['mv',of,ofile])

    onc = NetCDFFile(ofile, 'a')

    newdim = onc.createDimension('lLd',1)
    newvar = onc.createVariable('lon_point','f',('lLd'))
    newattr = basicvardef(newvar,'lon_point','longitude of selection of the values', \
      'degrees_East')
    newvar[:] = longitude

    newvar = onc.createVariable('lat_point','f',('lLd'))
    newattr = basicvardef(newvar,'lat_point','latitude of selection of the values',  \
      'degrees_North')
    newvar[:] = latitude

    newvar = onc.createVariable('flon_point','f',('lLd'))
    newattr = basicvardef(newvar,'flon_point','closest longitude of selection of ' + \
      'the values', 'degrees_East')
    newvar[:] = lon2d[tuple(mappairs)]

    newvar = onc.createVariable('flat_point','f',('lLd'))
    newattr = basicvardef(newvar,'flat_point','closest latitude of selection of ' +  \
      'the values', 'degrees_North')
    newvar[:] = lat2d[tuple(mappairs)]

    newvar = onc.createVariable('fdist_point','f',('lLd'))
    newattr = basicvardef(newvar,'fdist_point','distance to the point of selection '+\
      'of the values', 'degrees')
    newvar[:] = mindist

    onc.sync()
    onc.close()

    print fname + ": successful writing of file '" + ofile + "' !!"

    return 

#vals='20.5:36.0:west_east,south_north:XLONG_M,XLAT_M'
#ncf='/home/lluis/etudes/domains/medic051215_2km/geo_em.d01.nc'

def put_variable_slice(inc, onc, vn, sliced):
    """ Function to add a variable from a netcdf object to a new one following a slice
      inc= input netcdf object
      onc= output netcdf object
      vn= variable name to include
      sliced= dictionary with the dimension name as key and [beg, end, int] as values
    """
    fname = 'put_variable_slice'

    if not gen.searchInlist(inc.variables,vn):
        print errormsg
        print ' ' + fname + ": variable '" + vn + "' is not in file!!"
        quit(-1)

    ov = inc.variables[vn]

#    dnvs = ov.dimensions
    dnvs = []
    varslice = []
# Getting variable's dimensions
    for dnv in ov.dimensions:
        if gen.searchInlist(sliced.keys(),dnv):
            newdimsize = sliced[dnv][1] - sliced[dnv][0]
        else:
            newdimsize = 10
        if not gen.searchInlist(onc.dimensions,dnv):
# Avoiding montone dimensions!
            if newdimsize > 0:
                od = inc.dimensions[dnv]
                if od.isunlimited():
                    dsize = None
                else:
                    dsize = len(od)
                newdim = onc.createDimension(dnv, dsize)
        if gen.searchInlist(sliced.keys(),dnv):
            if newdimsize > 0:
                varslice.append(slice(sliced[dnv][0], sliced[dnv][1], sliced[dnv][2]))
                dnvs.append(dnv)
            else:
                varslice.append(sliced[dnv][0])
        else:
            varslice.append(slice(0,len(inc.dimensions[dnv])))
            dnvs.append(dnv)
# Getting variable
    varattrs = ov.ncattrs()
    if gen.searchInlist(varattrs, '_FillValue'):
        varfil = ov._FillValue
    else:
        varfil = False
    vartype = ov.dtype

    newvar = onc.createVariable(vn, vartype, tuple(dnvs), fill_value=varfil)
    finalvals = np.squeeze(ov[tuple(varslice)])
    newvar[:] = finalvals

    for attrs in varattrs:
        if not attrs == '_FillValue':
            attrv = ov.getncattr(attrs)
            attr = set_attribute(newvar, attrs, attrv)

    return

def DataSetSection_multivars(values, filen, varn):
    """ Function to get a section (values along multiple variables) of a given data-set
      values= [varn1],[beg1],[end1],[int1]@[...[[varnM],[begM],[endM],[intM]]]
        [varni]: name of the variable ('WRFt', for WRF time varibale)
        [begi],[endi],[inti]: beginning, end and interval along the variable
          [endi] = -1, maximum value
          [inti] = -1, all the values within the range
                 = 0, single value. [begi] will be taken as the reference value
          NOTE: variables without section by the variables are taken allover their size
          NOTE2: if inti = 'str', it is assumed that the variable is a string-list of values
            then [begi] must be the string to be used ('!', for spaces)
      filen= netCDF with the data-set
      varn= ',' list of variables ('all', for all variables)
    """
    import numpy.ma as ma
    fname = 'DataSetSection_multivars'

# Variables not to check in the file
    NOcheck = ['WRFt']

    if values == 'h':
        print fname + '_____________________________________________________________'
        print DataSetSection_multivars.__doc__
        quit()

    Nvars = len(values.split('@'))

    nciobj = NetCDFFile(filen,'r')

# Slicing variables
    varns = []
    ofiletile = ''
    slicevalS = ''

    begvs = np.zeros((Nvars), dtype=int)
    endvs = np.zeros((Nvars), dtype=int)
    intvs = np.zeros((Nvars), dtype=int)
    fbegvs = np.zeros((Nvars), dtype=np.float)
    fendvs = np.zeros((Nvars), dtype=np.float)
    fintvs = np.zeros((Nvars), dtype=np.float)

    for ivar in range(Nvars):
        val = values.split('@')[ivar]
        vn = val.split(',')[0]
        if not gen.searchInlist(nciobj.variables,vn):
            print errormsg
            print '  ' + fname + ": file '" + filen + "' does not have variable '" + \
              vn + "' !!"
            print '    it has:', list(nciobj.variables)
            quit(-1)

        ostrvar = nciobj.variables[vn]
        varns.append(vn)
        if val.split(',')[3] == 'str':
            strvalue = val.split(',')[1].replace('!',' ')
            print warnmsg
            print '  ' + fname + ": String value for variable '" + val + "' !!"
            print '    assuming string variable as [Nvalues, Lstring]'
            print "    from which only is required '" + strvalue + "'"
            strvals = get_str_nc(ostrvar, ostrvar.shape[1])
            if not gen.searchInlist(strvals, strvalue):
                print errormsg
                print '  ' + fname + ": variable '" + val + "' does not have " +     \
                  "value= '" + strvalue + "' !!"
                print '    values:', strvals
                quit(-1)
            indstrvalue = strvals.index(strvalue)
            begvs[ivar] = np.float(indstrvalue)
            endvs[ivar] = np.float(indstrvalue)
            intvs[ivar] = -99.
            ofiletile = ofiletile + '_' + varns[ivar] + '_S'
        else:
            begvs[ivar] = np.float(val.split(',')[1])
            endvs[ivar] = np.float(val.split(',')[2])
            intvs[ivar] = np.float(val.split(',')[3])
            fbegvs[ivar] = np.float(val.split(',')[1])
            fendvs[ivar] = np.float(val.split(',')[2])
            fintvs[ivar] = np.float(val.split(',')[3])
            ofiletile = ofiletile + '_' + varns[ivar] + '_B' + str(begvs[ivar]) + '-E' + \
              str(endvs[ivar]) + '-I' + str(intvs[ivar])
            if intvs[ivar] != -1:
                slicevalS = slicevalS + varns[ivar] + ' (' + str(fbegvs[ivar]) + ',' +   \
                  str(fendvs[ivar]) + ',' + str(fintvs[ivar]) + '); '
            else:
                slicevalS = slicevalS + varns[ivar] + ' (' + str(fbegvs[ivar]) + ',' +   \
                  str(fendvs[ivar]) + ',1); '

    ofile = ofile=filen.split('.')[0] + ofiletile + '.nc'

    ncoobj = NetCDFFile(ofile,'w')

# Output variables
##
    if varn == 'all':
        variables = nciobj.variables
    else:
        if varn.find(',') != -1:
            variables = varn.split(',')
        else:
            variables = [varn]

# Looking for limits due to the variables
##
    slicedims = {}
    for ivar in range(Nvars):
        print '  ' + fname + ": masking with '" + varns[ivar] + "':",  begvs[ivar],  \
          ',', endvs[ivar], ',', intvs[ivar]
        if not gen.searchInlist(nciobj.variables,varns[ivar]) and not                \
          gen.searchInlist(NOcheck,varns[ivar]):
            print errormsg
            print ' ' + fname + ": variable '" + varns[ivar] + "' is not in ' +      \
              'input file!!"
            quit(-1)

        if varns[ivar] == 'WRFt':
            ovar = nciobj.variables['Times'][:]
            vals = []
            for it in range(ovar.shape[0]):
                vals.append(datetimeStr_conversion(ovar[it,:], 'WRFdatetime',        \
                  'YmdHMS'))
                vals[it] = int(vals[it])
                begvs[ivar] = int(begvs[ivar])
                endvs[ivar] = int(endvs[ivar])
                intvs[ivar] = int(intvs[ivar])

            vals = np.array(vals)
            vardims = ['Time']
        else:
            ovar = nciobj.variables[varns[ivar]]
            vals = ovar[:]
            vardims = ovar.dimensions

        if intvs[ivar] == -99.:
            ostrvar = nciobj.variables[varns[ivar]]
            finalmask = np.ones((ostrvar.shape), dtype= bool)
            finalmask[int(begvs[ivar]),:] = False
        elif intvs[ivar] == 0.:
#           Looking in the non efficient way
            diffvar = np.abs(vals-fbegvs[ivar])
            mindiffvar = np.min(diffvar)
            imindiff = gen.index_mat(diffvar, mindiffvar)
            if np.all(imindiff == -1): 
                print errmsg
                print '  ' + fname + ": no exact value '" + varns[ivar] + "'=",      \
                  fbegvs[ivar], 'has been found!!'
                quit(-1)
            print '  ' + fname + ": '" + varns[ivar] + "'= ", fbegvs[ivar],          \
              'indexes:', imindiff, 'distance:', mindiffvar
            finalmask = np.ones(vals.shape, dtype=np.float)
           
            finalmask[tuple(imindiff)] = False
        else:
            if endvs[ivar] == -1: endvs[ivar] = np.max(vals)
            maskinf = ma.masked_less(vals, begvs[ivar])
            masksup = ma.masked_greater(vals, endvs[ivar])

            if intvs[ivar] != -1:
                print errormsg
                print '  ' + fname + ': non-consecutive slices not ready!!'
                quit(-1)
            finalmask = maskinf.mask + masksup.mask
            idn = 0
        
        iidim = 0
        for dn in vardims:
            ddn = len(nciobj.dimensions[dn])
            dinds = np.arange(ddn)
            rightvals = ~ma.array(vals, mask=finalmask).mask

# Checking if dimension is already cut:
            if slicedims.has_key(dn):
                slicedval = slicedims[dn]
                if slicedval[0] == 0 and slicedval[1] == ddn: 
                    fulldim = True
                else:
                    fulldim = False
            else:
                fulldim = True

            if not slicedims.has_key(dn) or fulldim:
                if intvs[ivar] == -99.:
                    if iidim == 0:
                        slicedims[dn]=[int(begvs[ivar]), int(begvs[ivar]), None]
                    else:
                        slicedims[dn]=[0, ddn, None]
                elif intvs[ivar] == 0.:
                    if imindiff[iidim] == 0:
                        slicedims[dn]=[0, ddn, None]
                    else:
                        slicedims[dn]=[imindiff[iidim], imindiff[iidim], None]
                else:
                    slicedims[dn]=[np.min(dinds), np.max(dinds)+1, None]

            iidim = iidim + 1

        print '  ' + fname + ': slicing variables with______'
        print slicedims
 
# Creating dimensions
## 
    print '  ' + fname + ': adding dimensions...'
    for nd in slicedims.keys():
        objdim = nciobj.dimensions[nd]
        if objdim.isunlimited():
            dimsize = None
        else:
            dimsize = slicedims[nd][1] - slicedims[nd][0]
        if dimsize > 0: newdim = ncoobj.createDimension(nd, dimsize)
    ncoobj.sync()

    for var in variables:
        put_variable_slice(nciobj, ncoobj, var, slicedims)

# Global attributes
## 
    for attrs in nciobj.ncattrs():
        attrv = nciobj.getncattr(attrs)
        attr = set_attribute(ncoobj, attrs, attrv)

    attr = set_attribute(ncoobj, 'sliced_variables', slicevalS)

    nciobj.close()

    ncoobj.sync()
    ncoobj.close()

    print '  ' + fname + ' succesfull creation of file "' + ofile + '" !!!'

    return

#DataSetSection_multivars('XTIME,4380,4800,-1','/home/lluis/PY/wrfout_d01_2001-11-11_00:00:00','T2')
#DataSetSection_multivars('WRFt,20011111060000,20011111180000,-1','/home/lluis/PY/wrfout_d01_2001-11-11_00:00:00','all')
#quit()

def get_attribute(values, filen, varn):
    """ Function to get an attribute from a netCDF file
      values= [attrname]
        attrname: attribute name
      filen= name of the netCDF file
      varn= name of the variable ('global' for a global attribute)
    """
    fname = 'get_attribute'
    attrn = values

    if values == 'h':
        print fname + '_____________________________________________________________'
        print get_attribute.__doc__
        quit()

    onc = NetCDFFile(filen, 'r')

    if varn == 'global':
        if not gen.searchInlist(onc.ncattrs(), attrn):
            print errormsg
            print '  ' + fname + ": file '" + filen + "' does not have atribute '" + \
              attrn + "' !!"
            quit(-1)
        else:
            attrv = onc.getncattr(attrn)
    else:
        if not gen.searchInlist(onc.variables, varn): 
            print errormsg
            print '  ' + fname + ": file '" + filen + "' does not have variable '" + \
              varn + "' !!"
            quit(-1)
        else:
            ovar = onc.variables[varn]
            if not gen.searchInlist(ovar.ncattrs(), attrn):
                print errormsg
                print '  ' + fname + ": variable '" + varn + "' does not have " +    \
                  "atribute '" + attrn + "' !!"
                print '    it has:',ovar.ncattrs()
                quit(-1)
            else:
                attrv = ovar.getncattr(attrn)

    onc.close()

    return attrv

def DimsLoop(ovar,seldims):
    """ Function to provide the shape of the dimensions which are not selected
      ova= variable object
      seldims= list of dimensions to select
    """
    fname = 'DimsLoop'

    newshape = []
    noloopdims = []

    idim = 0
    for dim in list(ovar.dimensions):
        if not gen.searchInlist(seldims,dim):
            newshape.append(ovar.shape[idim])
            noloopdims.append(dim)
        idim = idim + 1

    return newshape, noloopdims

def SliceVar(ovar,dloop,dloopindex):
    """ Function to slice a given variable throughout a given list of dimensions
      ovar= variable object to slice
      dloop= list of dimensions to get a single value
      dloopindex= value of the loop dimenion to get
    """
    fname = 'SliceVar'

    varshape = ovar.shape

    slicevals = []
    idim = 0
    for dim in ovar.dimensions:
        if gen.searchInlist(dloop,dim):
            slicevals.append(dloopindex[idim])
        else:
            slicevals.append(slice(0,varshape[idim]))
        idim = idim + 1

    return slicevals

def SliceVarDict(ovar,slicedict):
    """ Function to slice a given variable throughout a dictionary
      ovar= variable object to slice
      slicedict= dictionary with the values to slice
        slicedict[dimn] = [value]
          [value] = -1, all the values
          [value] = -9, last values
          [value] = int, a single value
          [value] = [beg, end, frq], from a beginning to an end with a given frequency
      returning:
        slicevals: list with the values of the slice
        slicefinaldims: final dimensions of the slice (without monotonic dimensions)
    """
    fname = 'SliceVarDict'

    varshape = ovar.shape

    slicevals = []
    slicefinaldims = []
    idim = 0
    for dim in ovar.dimensions:
        if gen.searchInlist(slicedict.keys(),dim):
            dictv = slicedict[dim]
            if type(dictv) == type([1]):
                slicevals.append( slice(dictv[0], dictv[1], dictv[2]) )
                slicefinaldims.append(dim)
            elif type(dictv) == type(int(1)):
                if dictv == -1:
                    slicevals.append(slice(0,varshape[idim]))
                    slicefinaldims.append(dim)
                elif dictv == -9:
                    slicevals.append(varshape[idim]-1)
                    slicefinaldims.append(dim)
                else:
                    slicevals.append(dictv)
        else:
            slicevals.append(slice(0,varshape[idim]))
            slicefinaldims.append(dim)

        idim = idim + 1

    return slicevals, slicefinaldims

def varDimension(oncf, dname):
    """ Function to find the variable with the values of a dimension. It is assumed, that given variable
      might have a shape with only the dimension, double precision
      oncf: netCDF object
      dname: name of the dimension
    """
    fname = 'varDimension'

    if not oncf.dimensions.has_key(dname):
        print errormsg
        print '  ' + fname + ": NetCDF object does not have dimension '" + dname + "' !!"
        quit(-1)

# 1D variables with the dimension name
##
    d1var = []
    for vn in oncf.variables:
        ovn = oncf.variables[vn]
        if len(ovn.shape) == 1 and ovn.dimensions[0] == dname: d1var.append(vn)

    if len(d1var) != 0:
        print '  ' + fname + ": 1D variables with dimension '" + dname + "':",d1var
    else:
        print warnmsg
        print '  ' + fname + ": Any 1D variables with dimension '" + dname + "' !!"
        return

# Dpouble precision
## 
    if len(d1var) == 0:
        dimvarname = None
    if len(d1var) > 1:
        d1vardouble = []
        for vn in d1var:
            ovn = oncf.variables[vn]
            if ovn.dtype == type(np.float64(1.)): d1vardouble.append(vn)
        if len(d1vardouble) > 1:
            print errormsg
            print '  ' + fname + ": Found more than 1D double variable with " +      \
              "dimension '" + dname + "' !!"
            print '    found:', d1vardouble
            quit(-1)
        elif len(d1vardouble) == 0:
            print warnmsg
            print '  ' + fname + ": Found any 1D double variable with dimension '" + \
              dname + "' !!"
            dimvarname = None
        else:
            dimvarname = d1vardouble[0]
    else:
        dimvarname = d1var[0]

    return dimvarname

def ovar_onc(incf, ovar, oncf):
    """ Function to copy an object variable to a nother netcdf object
      incf: input netCDF object
      ovar= variable object
      oncf= netCDF object
    """
    fname = 'ovar_onc'

    varname = ovar._name

    if oncf.variables.has_key(varname):
        print warnmsg
        print '  ' + fname + ": netCDF object already has variable '" + ovar.name +  \
          "' !!"
        print '    doing noting'
        return

    vardims = ovar.dimensions
    vartype = ovar.dtype

    for dn in vardims:
        if not gen.searchInlist(oncf.dimensions, dn):
            if incf.dimensions[dn].isunlimited():
                newdim = oncf.createDimension(dn, None)
            else:
                newdim = oncf.createDimension(dn, len(incf.dimensions[dn]))
 
    newvar = oncf.createVariable(varname, vartype, vardims)
    newvar[:] = ovar[:]

    for attrn in ovar.ncattrs():
        attrv = ovar.getncattr(attrn)
        set_attribute(newvar, attrn, attrv)

    oncf.sync()

    return

def SpatialWeightedMean(values, filen, varn):
    """ Function to compute the spatial mean using weights from a netCDF file
      values= [weightskind],[xdimname],[ydimname],[addvars]
        [weightskind]: type of weights:
          * 'varnames',[varname],[oper]: using a variable [varname] with an operation [oper] as area size
            [oper]: available operations
              'inv': inverse of the values 1/[varname]
              'nothing': direct values
              'prodinv': inverse of the product between 2 variables ([varname1]*[varname2]), 
                 NOTE: [varname] = [varname1]:[varname2]
          * 'reglonlat',[lonname],[latname]: regular lon/lat projection to compute the area size
        [xdimname]: name of the dimension for the x-axis
        [ydimname]: name of the dimension for the y-axis
        [addvars]: ':', separetd list of name of variables to add to the output file 
      filen= name of the netCDF file
      varn= name of the variable
    """
    fname = 'SpatialWeightedMean'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print SpatialWeightedMean.__doc__
        quit()

    operations = ['inv','nothing','prodinv']

    weightk = values.split(',')[0]
    xdimname = values.split(',')[3]
    ydimname = values.split(',')[4]
    addvars = values.split(',')[5]

    ofile = 'SpatialWeightedMean_' + weightk + '.nc'

    if weightk == 'varnames':
        arguments = '[weightk],[varname],[oper],[xdimname],[ydimname],[addvars]'
        gen.check_arguments(fname, values, arguments, ',')
        varname = values.split(',')[1]
        oper = values.split(',')[2]     
        if not gen.searchInlist(operations, oper):
            print errormsg
            print '  ' + fname + ": operation '" + oper + "' not ready!!"
            print '  ready operations:',operations
            quit(-1)
    elif weightk == 'reglonlat':
        arguments = '[weightk],[lonname],[latname],[xdimname],[ydimname],[addvars]'
        gen.check_arguments(fname, values, arguments, ',')
        lonname = values.split(',')[1]
        latname = values.split(',')[2]
    else:
        print errormsg
        print '  ' + fname + ": wieght type '" + weightk + "' not ready!!"
        quit(-1)

# Operations
##
    onc = NetCDFFile(filen, 'r')
    if not onc.variables.has_key(varn):
        print errormsg
        print '  ' + fname + ": file '" + filen + "' does not have variable '" +     \
          varn + "' !!"
        quit(-1)
    iovar = onc.variables[varn]
    if not gen.searchInlist(list(iovar.dimensions),xdimname) and not                 \
      gen.searchInlist(list(iovar.dimensions),ydimname):
        print errormsg
        print '  ' + fname + ": variable '" + varn + "' does not have dimension '" + \
          xdimname + "' neither '" + ydimname + "' !!"
        quit(-1)

# Variable attributes
    filemiss = False
    ivarattrs = iovar.ncattrs()
    if gen.searchInlist(ivarattrs, 'missing_value'):
        filemissv = iovar.getncattr('missing_value')
        filemiss = True
        print '  ' + fname + ' input data with missing value:',filemissv,'!!'

    filefill = False
    if gen.searchInlist(ivarattrs, '_FillValue'): 
        filefillv = iovar.getncattr('_FillValue')
        filefill = True
        print '  ' + fname + ' input data with fill value:',filefillv,'!!'

# Getting shape of output variables for future average loop
##
    loopshape, dimsloop = DimsLoop(iovar,[xdimname, ydimname])

    if len(loopshape) > 3:
        print erromsg
        print '  ' + fname + ': output size not ready!!'
        quit(-1)

    ivarv = iovar[:]

    if weightk == 'varnames':
        if oper == 'inv':
            if not onc.variables.has_key(varname):
                print errormsg
                print '  ' + fname + ": file '" + filen + "' does not have " +       \
                  "variable '" + varname + "' !!"
                quit(-1)
            iovarwgt = onc.variables[varname]
            ivarwgtv = iovarwgt[:]
        elif oper == 'nothing':
            if not onc.variables.has_key(varname):
                print errormsg
                print '  ' + fname + ": file '" + filen + "' does not have " +       \
                  "variable '" + varname + "' !!"
                quit(-1)
            iovarwgt = onc.variables[varname]
            ivarwgtv = iovarwgt[:]
        elif oper == 'prodinv':
            varname1 = varname.split(':')[0]
            varname2 = varname.split(':')[1]
            if not onc.variables.has_key(varname1):
                print errormsg
                print '  ' + fname + ": file '" + filen + "' does not have " +       \
                  "variable '" + varname1 + "' !!"
                quit(-1)
            if not onc.variables.has_key(varname2):
                print errormsg
                print '  ' + fname + ": file '" + filen + "' does not have " +       \
                  "variable '" + varname2 + "' !!"
                quit(-1)
            iovarwgt1 = onc.variables[varname1]
            iovarwgt2 = onc.variables[varname2]
            ivarwgtv = iovarwgt1[:]*iovarwgt2[:]

        if oper == 'inv':
            longvarname = 'using inverse of variable ' + varname + ' as space weights'
            if len(loopshape) == 1:
                newvals = np.ones((loopshape[0]), dtype=np.float)*gen.fillValueF
                newsumvals = np.ones((loopshape[0]), dtype=np.float)*gen.fillValueF
                for id1 in range(loopshape[0]):
                    slicevalues = SliceVar(iovar,dimsloop,[id1])
                    slicewgt = SliceVar(iovarwgt,dimsloop,[id1])
                    TOTsumwgt = np.sum(1./ivarwgtv[tuple(slicewgt)])
                    newsumvals[id1] = np.sum(ivarv[tuple(slicevalues)] /             \
                      ivarwgtv[tuple(slicewgt)])
                    newvals[id1] = np.sum(ivarv[tuple(slicevalues)] /                \
                      ivarwgtv[tuple(slicewgt)]) / TOTsumwgt
            elif len(loopshape) == 2:
                newvals = np.ones((loopshape[0],loopshape[1]),dtype=np.float)*       \
                  gen.fillValueF
                newsumvals = np.ones((loopshape[0],loopshape[1]),dtype=np.float)*    \
                  gen.fillValueF
                for id1 in range(loopshape[0]):
                    for id2 in range(loopshape[1]):
                        slicevalues = SliceVar(iovar,dimsloop,[id1,id2])
                        slicewgt = SliceVar(iovarwgt,dimsloop,[id1,id2])
                        TOTsumwgt = np.sum(1./ivarwgtv[tuple(slicewgt)])
                        newsumvals[id1,id2] = np.sum(ivarv[tuple(slicevalues)] /     \
                          ivarwgtv[tuple(slicewgt)])
                        newvals[id1,id2] = np.sum(ivarv[tuple(slicevalues)] /        \
                          ivarwgtv[tuple(slicewgt)]) / TOTsumwgt
            elif len(loopshape) == 3:
                newvals = np.ones((loopshape[0],loopshape[1],loopshape[2]),          \
                  dtype=np.float)*gen.fillValueF
                newsumvals = np.ones((loopshape[0],loopshape[1],loopshape[2]),       \
                  dtype=np.float)*gen.fillValueF
                for id1 in range(loopshape[0]):
                    for id2 in range(loopshape[1]):
                        for id3 in range(loopshape[1]):
                            slicevalues = SliceVar(iovar,dimsloop,[id1,id2,id3])
                            slicewgt = SliceVar(iovarwgt,dimsloop,[id1,id2,id3])
                            TOTsumwgt = np.sum(1./ivarwgtv[tuple(slicewgt)])
                            newsumvals[id1,id2,id3]=np.sum(ivarv[tuple(slicevalues)]/\
                              ivarwgtv[tuple(slicewgt)])
                            newvals[id1,id2,id3]= np.sum(ivarv[tuple(slicevalues)]/  \
                              ivarwgtv[tuple(slicewgt)]) / TOTsumwgt
            outweightvals = 1./ivarwgtv[tuple(slicewgt)]
        elif oper == 'nothing':
            longvarname = 'using variable ' + varname + ' as space weights'
            if len(loopshape) == 1:
                newvals = np.ones((loopshape[0]), dtype=np.float)*gen.fillValueF
                newsumvals = np.ones((loopshape[0]), dtype=np.float)*gen.fillValueF
                for id1 in range(loopshape[0]):
                    slicevalues = SliceVar(iovar,dimsloop,[id1])
                    slicewgt = SliceVar(iovarwgt,dimsloop,[id1])
                    TOTsumwgt = np.sum(ivarwgtv[tuple(slicewgt)])
                    newsumvals[id1] = np.sum(ivarv[tuple(slicevalues)]*              \
                      ivarwgtv[tuple(slicewgt)])
                    newvals[id1] = np.sum(ivarv[tuple(slicevalues)]*                 \
                      ivarwgtv[tuple(slicewgt)]) / TOTsumwgt
            elif len(loopshape) == 2:
                newvals = np.ones((loopshape[0],loopshape[1]), dtype=np.float)*      \
                  gen.fillValueF
                newsumvals = np.ones((loopshape[0],loopshape[1]), dtype=np.float)*   \
                  gen.fillValueF
                for id1 in range(loopshape[0]):
                    for id2 in range(loopshape[1]):
                        slicevalues = SliceVar(iovar,dimsloop,[id1,id2])
                        slicewgt = SliceVar(iovarwgt,dimsloop,[id1,id2])
                        TOTsumwgt = np.sum(ivarwgtv[tuple(slicewgt)])
                        newsumvals[id1,id2] = np.sum(ivarv[tuple(slicevalues)]*      \
                          ivarwgtv[tuple(slicewgt)])
                        newvals[id1,id2] = np.sum(ivarv[tuple(slicevalues)]*         \
                          ivarwgtv[tuple(slicewgt)]) / TOTsumwgt
            elif len(loopshape) == 3:
                newvals = np.ones((loopshape[0],loopshape[1],loopshape[2]),          \
                  dtype=np.float)*gen.fillValueF
                newsumvals = np.ones((loopshape[0],loopshape[1],loopshape[2]),       \
                  dtype=np.float)*gen.fillValueF
                for id1 in range(loopshape[0]):
                    for id2 in range(loopshape[1]):
                        for id3 in range(loopshape[2]):
                            slicevalues = SliceVar(iovar,dimsloop,[id1,id2.id3])
                            slicewgt = SliceVar(iovarwgt,dimsloop,[id1,id2,id3])
                            TOTsumwgt = np.sum(ivarwgtv[tuple(slicewgt)])
                            newsumvals[id1,id2,id3]=np.sum(ivarv[tuple(slicevalues)]*\
                              ivarwgtv[tuple(slicewgt)])
                            newvals[id1,id2,id3]=np.sum(ivarv[tuple(slicevalues)]*   \
                              ivarwgtv[tuple(slicewgt)]) / TOTsumwgt
            outweightvals = ivarwgtv[tuple(slicewgt)]
        if oper == 'prodinv':
            longvarname = 'using inverse of product of variables ' + varname1 + '*'  \
              + varname2 + ' as space weights'
            if len(loopshape) == 1:
                newvals = np.ones((loopshape[0]), dtype=np.float)*gen.fillValueF
                newsumvals = np.ones((loopshape[0]), dtype=np.float)*gen.fillValueF
                for id1 in range(loopshape[0]):
                    slicevalues = SliceVar(iovar,dimsloop,[id1])
                    slicewgt = SliceVar(iovarwgt1,dimsloop,[id1])
                    TOTsumwgt = np.sum(1./ivarwgtv[tuple(slicewgt)])
                    newsumvals[id1] = np.sum(ivarv[tuple(slicevalues)] /             \
                      ivarwgtv[tuple(slicewgt)])
                    newvals[id1] = np.sum(ivarv[tuple(slicevalues)] /                \
                      ivarwgtv[tuple(slicewgt)]) / TOTsumwgt
            elif len(loopshape) == 2:
                newvals = np.ones((loopshape[0],loopshape[1]),dtype=np.float)*       \
                  gen.fillValueF
                newsumvals = np.ones((loopshape[0],loopshape[1]),dtype=np.float)*    \
                  gen.fillValueF
                for id1 in range(loopshape[0]):
                    for id2 in range(loopshape[1]):
                        slicevalues = SliceVar(iovar,dimsloop,[id1,id2])
                        slicewgt = SliceVar(iovarwgt,dimsloop,[id1,id2])
                        TOTsumwgt = np.sum(1./ivarwgtv[tuple(slicewgt)])
                        newsumvals[id1,id2] = np.sum(ivarv[tuple(slicevalues)] /     \
                          ivarwgtv[tuple(slicewgt)])
                        newvals[id1,id2] = np.sum(ivarv[tuple(slicevalues)] /        \
                          ivarwgtv[tuple(slicewgt)]) / TOTsumwgt
            elif len(loopshape) == 3:
                newvals = np.ones((loopshape[0],loopshape[1],loopshape[2]),          \
                  dtype=np.float)*gen.fillValueF
                newsumvals = np.ones((loopshape[0],loopshape[1],loopshape[2]),       \
                  dtype=np.float)*gen.fillValueF
                for id1 in range(loopshape[0]):
                    for id2 in range(loopshape[1]):
                        for id3 in range(loopshape[1]):
                            slicevalues = SliceVar(iovar,dimsloop,[id1,id2,id3])
                            slicewgt = SliceVar(iovarwgt,dimsloop,[id1,id2,id3])
                            TOTsumwgt = np.sum(1./ivarwgtv[tuple(slicewgt)])
                            newsumvals[id1,id2,id3]=np.sum(ivarv[tuple(slicevalues)]/\
                              ivarwgtv[tuple(slicewgt)])
                            newvals[id1,id2,id3]= np.sum(ivarv[tuple(slicevalues)]/  \
                              ivarwgtv[tuple(slicewgt)]) / TOTsumwgt
            outweightvals = 1./ivarwgtv[tuple(slicewgt)]
    elif weightk == 'reglonlat':
        longvarname = 'using cos(latitude) variable ' + latname + ' as space weights'
        if not onc.variables.has_key(lonname):
            print errormsg
            print '  ' + fname + ": file '" + filen + "' does not have variable '" + \
              lonname + "' !!"
            quit(-1)
        if not onc.variables.has_key(latname):
            print errormsg
            print '  ' + fname + ": file '" + filen + "' does not have variable '" + \
              latname + "' !!"
            quit(-1)

        iolon = onc.variables[lonname]
        iolat = onc.variables[latname]
        ilonv = iolon[:]
        ilatv = iolat[:]

        lonv, latv = lonlat2D(ilonv, ilatv)

        ivarwgtv = np.abs(np.cos(latv*np.pi/180.))
        TOTsumwgt = np.sum(ivarwgtv)

        if len(loopshape) == 1:
            newvals = np.ones((loopshape[0]), dtype=np.float)*gen.fillValueF
            newsumvals = np.ones((loopshape[0]), dtype=np.float)*gen.fillValueF
            for id1 in range(loopshape[0]):
                slicevalues = SliceVar(iovar,dimsloop,[id1])
                vals = ivarv[tuple(slicevalues)]
                if filemiss: vals = np.where(vals == filemissv, 0., vals)
                if filefill: vals = np.where(vals == filefillv, 0., vals)
                newsumvals[id1] = np.sum(vals*ivarwgtv)
                newvals[id1] = newsumvals[id1]/TOTsumwgt
        elif len(loopshape) == 2:
            newvals = np.ones((loopshape[0],loopshape[1]),                           \
              dtype=np.float)*gen.fillValueF
            newsumvals = np.ones((loopshape[0],loopshape[1]),                        \
              dtype=np.float)*gen.fillValueF
            for id1 in range(loopshape[0]):
                for id2 in range(loopshape[1]):
                    slicevalues = SliceVar(iovar,dimsloop,[id1,id2])
                    vals = ivarv[tuple(slicevalues)]
                    if filemiss: vals = np.where(vals == filemissv, 0., vals)
                    if filefill: vals = np.where(vals == filefillv, 0., vals)
                    newsumvals[id1,id2] = np.sum(vals*ivarwgtv)
                    newvals[id1,id2] = newsumvals[id1,id2] / TOTsumwgt
        elif len(loopshape) == 3:
            newvals = np.ones((loopshape[0],loopshape[1],loopshape[2]),              \
              dtype=np.float)*gen.fillValueF
            newsumvals = np.ones((loopshape[0],loopshape[1],loopshape[2]),           \
              dtype=np.float)*gen.fillValueF
            for id1 in range(loopshape[0]):
                for id2 in range(loopshape[1]):
                    for id3 in range(loopshape[2]):
                        slicevalues = SliceVar(iovar,dimsloop,[id1,id2,id3])
                        vals = ivarv[tuple(slicevalues)]
                        if filemiss: vals = np.where(vals == filemissv, 0., vals)
                        if filefill: vals = np.where(vals == filefillv, 0., vals)
                        newsumvals[id1,id2,id3] = np.sum(vals*ivarwgtv)
                        newvals[id1,id2,id3] = newsumvals[id1,id2,id3] / TOTsumwgt
        outweightvals = ivarwgtv

# Writting output file
##
    onewnc = NetCDFFile(ofile, 'w')

# Dimensions creation
##
    for dim in dimsloop:
        newdim = onewnc.createDimension(dim, len(onc.dimensions[dim]))
        vardim = varDimension(onc, dim)
        if vardim is not None:
            ovar_onc(onc, onc.variables[vardim], onewnc)
            
# Output variable
##
    newvar = onewnc.createVariable(varn + 'spaceweightsum', 'f4', tuple(dimsloop),   \
      fill_value=gen.fillValueF)
    basicvardef(newvar, varn + 'spaceweightsum', 'space summed ' + varn + ' ' +      \
      longvarname, iovar.getncattr('units'))
    newvar[:] = newsumvals

    onewnc.sync()

    newvar = onewnc.createVariable(varn + 'spaceweightmean', 'f4', tuple(dimsloop),  \
      fill_value=gen.fillValueF)
    basicvardef(newvar, varn + 'spaceweightmean', 'space weighted ' + varn + ' ' +   \
      longvarname, iovar.getncattr('units'))
    newvar[:] = newvals

    onewnc.sync()

    print 'newsumvals:',newsumvals,'newvals:',newvals,'TOTsumwgt:',TOTsumwgt

# Spatial weight
##
    newdim = onewnc.createDimension(ydimname, outweightvals.shape[0])
    newdim = onewnc.createDimension(xdimname, outweightvals.shape[1])
    newvar = onewnc.createVariable('spatialweight', 'f4',tuple([ydimname, xdimname]),\
      fill_value=gen.fillValueF)
    basicvardef(newvar, 'spatialweight', 'space weight ' + longvarname, '-')
    newvar[:] = outweightvals

    onewnc.sync()

# Additional variables
##
    for vn in addvars.split(':'):
        if not onc.variables.has_key(vn):
            print errormsg
            print '  ' + fname + ": file '" + filen + "' does not have variable '" + \
              vn + "' !!"
            quit(-1)
        ovar_onc(onc, onc.variables[vn], onewnc)
    onewnc.sync()

# Global attributes
##
    onewnc.setncattr('script',  fname)
    onewnc.setncattr('version',  '1.0')
    onewnc.setncattr('author',  'L. Fita')
    newattr = set_attributek(onewnc, 'institution', unicode('Laboratoire de M' +     \
      unichr(233) + 't' + unichr(233) + 'orologie Dynamique'), 'U')
    onewnc.setncattr('university',  'Pierre et Marie Curie')
    onewnc.setncattr('country',  'France')
    for attrs in onc.ncattrs():
        attrv = onc.getncattr(attrs)
        attr = set_attribute(onewnc, attrs, attrv)

    onc.close()
    onewnc.sync()
    onewnc.close()

    print fname + ": Successfull written of file: '" + ofile + "' !!"

    return

#SpatialWeightedMean('varnames,MAPFAC_M,inv,west_east,south_north','wrfout_d01_2001-11-11_00:00:00','HGT')
#SpatialWeightedMean('reglonlat,XLONG,XLAT,west_east,south_north','wrfout_d01_2001-11-11_00:00:00','HGT')

def nctype(vartype):
    """ Function to provide the string for the variable creation in a netCDF file
      [vartype]= type of the variable
    """
    fname = 'nctype'

    if vartype == type('c'):
         ncs = 'c'
    elif vartype == '|S1':
         ncs = 'c'
    elif vartype == type(int(1)):
         ncs = 'i'
    elif vartype == type(np.int16(1)):
         ncs = 'i'
    elif vartype == type(np.int32(1)):
         ncs = 'i4'
    elif vartype == type(np.int64(1)):
         ncs = 'i8'
    elif vartype == type(np.float(1.)):
         ncs = 'f'
    elif vartype == type(np.float32(1.)):
         ncs = 'f4'
    elif vartype == type(np.float64(1.)):
         ncs = 'f8'
    else:
        print errormsg
        print '  ' + fname + ': variable type', vartype, 'not ready !!'
        quit(-1)

    return ncs

def VarVal_FillValue(values, filen, varn):
    """ Function to transform a given value from a given variable to _FillValue in a netCDF file
      values= [value],[fillVal]
        [value]: value to pass to '_FillValue'
        [fillVal]: value for '_FillValue', 'std' for the standard value
           Float = 1.e20
           Character = '-'
           Integer = -99999
           Float64 = np.float(Float)
           Integer32 = np.int32(Integer)
      filen= name of the netCDF file
      varn= name of the variable
    """
    fname = 'VarVal_FillValue'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print VarVal_FillValue.__doc__
        quit()

    onc = NetCDFFile(filen, 'a')
    if not onc.variables.has_key(varn):
        print errormsg
        print '  ' + fname + ": file '" + filen + "' does not have " +       \
          "variable '" + varn + "' !!"
        quit(-1)

    value = values.split(',')[0]
    fval0 = values.split(',')[1]

    varo = onc.variables[varn]
    varvals = varo[:]
    vartype = varo.dtype
    
    if vartype == '|S':
        valchk = value
    elif vartype == type(int(1)):
        valchk = int(value)
    elif vartype == type(np.int32(1)):
        valchk = np.int32(value)
    elif vartype == type(np.float(1.)):
        valchk = np.float(value)
    elif vartype == type(np.float32(1.)):
        valchk = np.float32(value)
    elif vartype == type(np.float64(1.)):
        valchk = np.float64(value)
    else:
        print errormsg
        print '  ' + fname + ': variable type', vartype, 'not ready !!'
        quit(-1)

    fval = fill_value(vartype, fval0)
    newvarvals = np.where(varvals==valchk, fval, varvals)

    if searchInlist(varo.ncattrs(), 'missing_value'):
        missval = varo.getncattr('missing_value')
        difvals = fval*10.**(-np.log10(valchk)) - missval*10.**(-np.log10(missval))
        if missval == valchk or np.abs(difvals) < 1.e-6:
            print warnmsg
            print '  ' + fname + ': same missing and checking Value!'
            print '   renaming missing_value'
            varo.delncattr('missing_value')
            set_attribute(varo, '_FillValue', fval)
        else:
            set_attribute(varo, '_FillValue', fval)
    else:
        set_attribute(varo, '_FillValue', fval)

    varo[:] = newvarvals

    onc.sync()
    onc.close()

    print fname +': Successfull change to _FillValue !!'

    return

#VarVal_FillValue('0.,std', '/home/lluis/etudes/DYNAMICO/ORCHIDEE/interpolation/data/new_lai2D.nc', 'LAI')

def lonlatProj(dxres, dyres, project, wfile):
    """ Function to compute longitudes and latitudes for a given projection
      following subroutine calc_resolution_in from ORCHIDEE/src_global/module_InterpWeight
     dxres= resolution on the WE axis [m]
     dyres= resolution on the SN axis [m]
     project= projection
       'lonlat': standard lon/lat projection tacking number of points from [dx/dy]res at the Equator
       'lonlat_dxdyFix': projection with a fixed grid distance
     wfile= Should an output file be written (True/False)
    """
    fname = 'lonlatProj'

    ofile = 'lonlatProj.nc'

    # Given constants
    EarthR = 6378000.
    RadDeg = 180./np.pi

    Npts = 1
    if project == 'lonlat':
        Nlon = int(2. * np.pi * EarthR / dxres) + 1
        Nlat = int(np.pi * EarthR / dyres) + 1

        if np.mod(Nlon,2) == 0: Nlon = Nlon + 1
        if np.mod(Nlat,2) == 0: Nlat = Nlat + 1

        lonProj = np.zeros((Nlon), dtype=np.float)
        latProj = np.zeros((Nlat), dtype=np.float)

        lonProj = -180. + np.arange(Nlon) * 2. * np.pi * RadDeg / (Nlon - 1)
        latProj = -90. + np.arange(Nlat) * np.pi * RadDeg / (Nlat - 1)

        dimx = Nlon
        dimy = Nlat
        Npts = dimx*dimy
        Npoints = np.arange((Npts)).reshape(dimy,dimx)

    elif project == 'lonlat_dxdyFix':
        lonProj = []
        latProj = []
        lonProjcirc = []
        latProjcirc = []
        Nlonmaxcirc = -10.

        lonProj.append(0.)
        latProj.append(-90.)
        lonProjcirc.append(0.)
        latProjcirc.append(-90.)
        # Differential on latitudes
        Nlat = int(np.pi * EarthR / dyres) + 3
        latarc = np.pi / (Nlat - 1)

        Nloncirc = np.zeros((Nlat), dtype=int)
        Nloncirc[0] = 1

        lat=-np.pi/2.
        ilat = 1
        while lat + latarc <= np.pi/2.:
            lon=0.
            lat = lat + latarc
            lonarc = dxres / (EarthR * np.cos(lat))
            lonscirc = []
            latProjcirc.append(lat*RadDeg)
            while lon <= 2.*np.pi:
#                print lonarc, latarc, lon, lat, [lon*RadDeg, lat*RadDeg]
                lonProj.append(-180. + lon*RadDeg)
                latProj.append(lat*RadDeg) 
                lonscirc.append(-180. + lon*RadDeg)
                lon = lon + lonarc
                Npts = Npts + 1
            lonProjcirc.append(lonscirc)
            Nloncirc[ilat] = len(lonscirc)

            if Nloncirc[ilat] > Nlonmaxcirc: Nlonmaxcirc = Nloncirc[ilat]
            ilat = ilat + 1

        lonProj.append(0.)
        latProj.append(90.)
        lonProjcirc.append(0.)
        latProjcirc.append(90.)
        Nloncirc[ilat] = 1
        Npts = Npts + 1

        dimx = Npts
        dimy = Npts
        Npoints = np.arange(Npts)
    else:
        print errormsg
        print '  ' + fname + ": projection '" + project + "' not ready !!"
        quit(-1)


    if ofile:
# netCDF creation
        onewnc = NetCDFFile(ofile, 'w')

# Dimensions
        newdim = onewnc.createDimension('x', dimx)
        newdim = onewnc.createDimension('y', dimy)
        newdim = onewnc.createDimension('Npts', Npts)
        if project == 'lonlat_dxdyFix':
            newdim = onewnc.createDimension('xcirc', Nlonmaxcirc)
            newdim = onewnc.createDimension('ycirc', Nlat)

# Variables
        newvar = onewnc.createVariable('lon', 'f8', ('x'))
        basicvardef(newvar, 'longitude', 'Longitude', 'degrees_East')
        newvar[:] = lonProj
        newvar.setncattr('axis', 'X')
        newvar.setncattr('_CoordinateAxisType', 'Lon')   

        newvar = onewnc.createVariable('lat', 'f8', ('y'))
        basicvardef(newvar, 'latitude', 'Latitude', 'degrees_North')
        newvar[:] = latProj
        newvar.setncattr('axis', 'Y')
        newvar.setncattr('_CoordinateAxisType', 'Lat')   

# Specific variables
        if project == 'lonlat_dxdyFix':
            newvar = onewnc.createVariable('Nloncirc', 'i', ('ycirc'))
            newvar[:] = Nloncirc
            basicvardef(newvar, 'Nloncirc', 'Number of longitudes by latitude circs', '-')

            newvar = onewnc.createVariable('loncirc', 'f8', ('ycirc','xcirc'))
            basicvardef(newvar, 'longitude', 'Longitude by latitude circs', 'degrees_East')
            for iL in range(Nlat):
                newvar[iL,0:Nloncirc[iL]] = np.asarray(lonProjcirc[iL])

            newvar = onewnc.createVariable('latcirc', 'f8', ('ycirc'))
            basicvardef(newvar, 'latitude', 'Latitude', 'degrees_North')
            newvar[:] = latProjcirc

        if len(Npoints.shape) == 2:
            newvar = onewnc.createVariable('points', 'i8', ('y', 'x'))
        else:
            newvar = onewnc.createVariable('points', 'i8', ('Npts'))

        basicvardef(newvar, 'points', '# point of the projection', '-')
        newvar[:] = Npoints
        newvar.setncattr('coordinates',  'lon lat')

# Global attributes
        onewnc.setncattr('script',  fname)
        onewnc.setncattr('version',  '1.0')
        onewnc.setncattr('author',  'L. Fita')
        newattr = set_attributek(onewnc, 'institution', unicode('Laboratoire de M' + \
          unichr(233) + 't' + unichr(233) + 'orologie Dynamique'), 'U')
        onewnc.setncattr('university',  'Pierre et Marie Curie')
        onewnc.setncattr('country',  'France')
        onewnc.setncattr('Projection','project')

        onewnc.sync()
        onewnc.close()

        print fname + "Successfull written of '" + ofile + "' !!'"

    if project == 'lonlat':
        return lonProj, latProj
    elif project == 'lonlat_dxdyFix':
        return lonProjcirc, latProj

#lonlatProj(100000.,100000.,'lonlat',True)
#quit()

def Partialmap_Entiremap(values, filen, varn):
    """ Function to transform from a partial global map (e.g.: only land points) to an entire one
      Coincidence of points is done throughout a first guess from fractions of the total domain of search
      values= [lonmame],[latname],[fillVal],[resolution],[kind],[lonlatProjfile],[fracd],[fracs]
        [lonname]: name of the longitude variable
        [latname]: name of the latitude variable
        [fillVal]: value for '_FillValue', 'std' for the standard value
           Float = 1.e20
           Character = '-'
           Integer = -99999
           Float64 = 1.e20
           Integer32 = -99999
        [resolution]: resolution of the map
        [kind]: kind of target projection
         'lonlat': standard lon/lat projection tacking number of points from [dx/dy]res at the Equator
         'lonlat_dxdyFix': projection with a fixed grid distance
         'Goode': Goode projection
        [lonlatProjfile]: file with the lon,lat of the desired projection. 'None' to be computed and written on fly
        [fracd]: Percentage of the fractions within perform the first guess search
        [fracs]: frequency of points at which syncronize file with calculations
      filen= name of the netCDF file
      varn= name of the variable
    """
    import numpy.ma as ma
    import subprocess as sub

    fname = 'Partialmap_Entiremap'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print Partialmap_Entiremap.__doc__
        quit()

    arguments = '[lonmame],[latname],[fillVal],[resolution],[kind],' +               \
      '[lonlatProjfile],[fracd],[fracs]'
    check_arguments(fname, values, arguments, ',')

    ofile = 'EntireGlobalMap.nc'

    onc = NetCDFFile(filen, 'r')
    if not onc.variables.has_key(varn):
        print errormsg
        print '  ' + fname + ": file '" + filen + "' does not have " +       \
          "variable '" + varn + "' !!"
        quit(-1)

    lonname = values.split(',')[0]
    latname = values.split(',')[1]
    fval0 = values.split(',')[2]
    resolution = np.float(values.split(',')[3])
    kind = values.split(',')[4]
    Projfile = values.split(',')[5]
    fracd = np.float(values.split(',')[6])
    fracs = int(values.split(',')[7])

    if Projfile == 'None':
        lonlatProjfile = None
    else:
        lonlatProjfile = Projfile

    if not onc.variables.has_key(lonname):
        print errormsg
        print '  ' + fname + ": file '" + filen + "' does not have " +       \
          "longitude '" + lonname + "' !!"
        quit(-1)
    if not onc.variables.has_key(latname):
        print errormsg
        print '  ' + fname + ": file '" + filen + "' does not have " +       \
          "latitude '" + latname + "' !!"
        quit(-1)

    olon = onc.variables[lonname]
    olat = onc.variables[latname]

    lonvs = olon[:]
    latvs = olat[:]

    Ninpts = len(lonvs)

    nlat = np.min(latvs)
    nlon = np.min(lonvs)

    minlat = np.min(np.abs(latvs))
    minlon = np.min(np.abs(lonvs))

#    mindiff = np.min([minlat, minlon])/1.
    mindiff = np.min([minlat, minlon])*10.e6

    print '  ' + fname + ': Closest latitude to Equator:', minlat
    print '  ' + fname + ': Closest longitude to Greenwich Meridian:', minlon
    print '  ' + fname + ': Minium distance for point coincidence:', mindiff

# Existing longitudes along/closest to the Equator
    eqlons = []
    for i in range(len(latvs)):
        if latvs[i] == minlat: eqlons.append(lonvs[i])

# Existing latitudes along/closest to the Greenwich Meridian
    grlats = []
    for i in range(len(lonvs)):
        if lonvs[i] == minlon: grlats.append(latvs[i])

    sorteqlons = np.sort(eqlons)
    sortgrlats = np.sort(grlats)
 
    Neqlons = len(sorteqlons)
    Ngrlats = len(sortgrlats)

    if Neqlons > 1:
        diffeqlons = sorteqlons[1:Neqlons-1] - sorteqlons[0:Neqlons-2]     
        mindeqlon = np.min(diffeqlons)
        print 'N sorteqlons:',Neqlons,'min deqlon:', mindeqlon
    else:
        mindeqlon = None

    if Ngrlats > 1:
        mindgrlat = np.min(diffgrlats)
        diffgrlats = sortgrlats[1:Ngrlats-1] - sortgrlats[0:Ngrlats-2]
        print 'N sortgrlats:',Ngrlats,'min dgrlat:', mindgrlat
        latmap = np.range(0,360.,360./mindeqlon)
    else:
        mindgrlat = None

# Fixing in case it has not worked
    if mindeqlon is not None and mindgrlat is None: mindgrlat = mindeqlon
    if mindeqlon is None and mindgrlat is not None: mindeqlon = mindgrlat
    if mindeqlon is None and mindgrlat is None:
        print errormsg
        print fname + ': Not enough values along the Equator and Greenwich!!'
        quit(-1)

    if lonlatProjfile is None:
        lonlatProjfile = kind + '.nc'
        print warnmsg
        print '  ' + fname + ": no reference map !!"
        print "    creation of '" + lonlatProjfile + "'"
        print '    creating it via: lonlatProj(', resolution, ',', resolution,       \
          ', ' + kind + ', True)'
        lonmap, latmap = lonlatProj(resolution, resolution, kind, True)
        sub.call(['mv','lonlatProj.nc',lonlatProjfile])

    oproj = NetCDFFile(lonlatProjfile, 'r')
    if kind == 'Goode':
        olon = oproj.variables['lon']
        olat = oproj.variables['lat']
        lonmap = olon[:]
        latmap = olat[:]
        projlon = olon[:]
        projlat = olat[:]
        omapvals = oproj.variables['ptid']
        Ntotvals = omapvals.shape[0] * omapvals.shape[1]
        Nmaplon = olon.shape[1]
        Nmaplat = olat.shape[0]

    elif kind == 'lonlat':
        olon = oproj.variables['lon']
        olat = oproj.variables['lat']
        lonmap = olon[:]
        latmap = olat[:]
        projlon = olon[:]
        projlat = olat[:]
        omapvals = oproj.variables['points']
        Ntotvals = omapvals.shape[0] * omapvals.shape[1]
        Nmaplon = olon.shape[0]
        Nmaplat = olat.shape[0]

    elif kind == 'lonlat_dxdyFix':
        oprojlon = oproj.variables['loncirc']
        oprojlat = oproj.variables['latcirc']
        oNprojlon = oproj.variables['Nloncirc']
        projlat = oprojlat[:]
        Nprojlon = oNprojlon[:]
        Ntotvals = len(oproj.dimensions['Npts'])
        olon = oproj.variables['lon']
        olat = oproj.variables['lat']
        lonmap = olon[:]
        latmap = olat[:]
        omapvals = oproj.variables['points']

#    Ntotvals = len(lonmap)
        Nmaplon = Ntotvals
        Nmaplat = Ntotvals
    else:
        print errormsg
        print '  ' + fname + ": projection kind '" + kind + "' not ready!!"
        quit(-1)

# Matrix map creation
##
    ovar = onc.variables[varn]
    vartype = type(ovar[0])
    varlongname = ovar.long_name
    varunits = ovar.units

    fval = fillvalue_kind(type(ovar[0]), fval0)

# Final map creation
##
    if not os.path.isfile(ofile):
        print '  ' + fname + "File '" + ofile + "' does not exist !!"
        print '    cration of output file'
        newnc = NetCDFFile(ofile, 'w')
# dimensions
        newdim = newnc.createDimension('lon',Nmaplon)
        newdim = newnc.createDimension('lat',Nmaplat)
        newdim = newnc.createDimension('inpts', Ninpts)
        newdim = newnc.createDimension('pts', Ntotvals)

# Variables
        if kind == 'Goode':
            newvar = newnc.createVariable('lon','f8',('lat', 'lon'))
        else:
            newvar = newnc.createVariable('lon','f8',('lon'))
        basicvardef(newvar, 'lon', 'Longitudes','degrees_East')
        newvar[:] = lonmap
        newvar.setncattr('axis', 'X')
        newvar.setncattr('_CoordinateAxisType', 'Lon')   

        if kind == 'Goode':
            newvar = newnc.createVariable('lat','f8',('lat','lon'))
        else:
            newvar = newnc.createVariable('lat','f8',('lat'))
        basicvardef(newvar, 'lat', 'Latitudes','degrees_North')
        newvar[:] = latmap
        newvar.setncattr('axis', 'Y')
        newvar.setncattr('_CoordinateAxisType', 'Lat')   

        newvarinpt = newnc.createVariable('locinpt','i',('inpts'))
        basicvardef(newvarinpt, 'locinpt', 'input point located: 0: no, 1: yes','-')

        newvarindiff = newnc.createVariable('locindiff','f4',('inpts'))
        basicvardef(newvarindiff, 'locindiff', 'distance between input point and its final location','degree')

# map variable
        Lmapvalsshape = len(omapvals.shape)
        if Lmapvalsshape == 1:
            newvar = newnc.createVariable(varn, nctype(vartype), ('pts'), fill_value=fval)
        else:
            newvar = newnc.createVariable(varn, nctype(vartype), ('lat','lon'), fill_value=fval)

        basicvardef(newvar, varn, varlongname, varunits)
        newvar.setncattr('coordinates', 'lon lat')

        if Lmapvalsshape == 1:
            newvarin = newnc.createVariable('inpts', 'i4', ('pts'))    
        else:
            newvarin = newnc.createVariable('inpts', 'i4', ('lat','lon'))

        basicvardef(newvarin, 'inpts', 'Equivalent point from the input source', '-')
        newvar.setncattr('coordinates', 'lon lat')

    else:
        print '  ' + fname + "File '" + ofile + "' exists !!"
        print '    reading values from file'
        newnc = NetCDFFile(ofile, 'a')
        newvar = newnc.variables[varn]
        newvarin = newnc.variables['inpts']
        newvarinpt = newnc.variables['locinpt']
        newvarindiff = newnc.variables['locindiff']

    amsk = np.arange(3)
    amsk = ma.masked_equal(amsk, 0)

#    fraclon = projlon[::Nmaplon*0.1]
#    fraclat = projlat[::Nmaplat*0.1]

#    print 'fraclon________________', fraclon.shape
#    print fraclon

#    print 'fraclat________________', fraclat.shape
#    print fraclat

# Reducing the searching points
    newvarinvals = newvarinpt[:]
    maskpt = np.where(newvarinvals.mask == True, False, True)
    points = np.arange(Ninpts)
    mapoints = ma.array(points, mask=maskpt)
    ptsf = mapoints.compressed()

    Nptsf = len(ptsf)
    print Ninpts,'Npoints to find:', len(ptsf), ptsf[0:10], newvarindiff[ptsf[0:10]]
# Error at 150024, 150025, 151709, 153421
    print '  ' + fname + ': from:', Ninpts,'re-locating:',Nptsf,'points...'
    if kind == 'Goode':
        empty = CoarselonlatFindAll(newnc,projlon,projlat,lonvs[ptsf],latvs[ptsf],   \
          fracd,fracs,False)

#        for iv0 in range(Nptsf):
#            iv = mapoints[ptsf[iv0]]
#            if newvarinpt[iv] == 0:

##                difflonlat = np.sqrt((projlon-lonvs[iv])**2. + (projlat-latvs[iv])**2.)
##                mindiffLl = np.min(difflonlat)
##                ilatlon = index_mat(difflonlat, mindiffLl)
#                ilatlon, mindiffLl = CoarselonlatFind(projlon,projlat,lonvs[iv],latvs[iv],fracd)

##                if ilatlon[0] != ilatlon2[0] or ilatlon[1] != ilatlon2[1]:
##                    print ilatlon, '<', ilatlon2
##                    print 'diff:', mindiffLl, '<', mindiffLl2
##                    quit(-1)

##                if mindiffLl != 0. or type(newvar[ilatlon[0],ilatlon[1]]) != type(amsk): 
##                    print errormsg
##                    if mindiffLl !=0.:
##                        print '  ' + main + ': no zero', newvarindiff[iv], 'distance!!'
##                    else:
##                        print '  ' + main+': point',projlon[ilatlon[0],ilatlon[1]],  \
##                          ',', projlat[ilatlon[0],ilatlon[1]], 'already filled!!'
##                        print '    value:',newvar[ilatlon[0],ilatlon[1]],'distance:',\
##                          newvarindiff[iv]
##
###                    print '   iv:', iv, 'lon:', lonvs[iv],'lat:',latvs[iv]
###                    print '   mindiffLl:',mindiffLl,'ilatlon:',ilatlon
###                    quit(-1)
###            print '  Lluis; ' + fname + ' iv:', iv, 'lon:', lonvs[iv],'lat:',latvs[iv]
###            print '  Lluis; ' + fname + ' mindiffLl:',mindiffLl,'ilatlon:',ilatlon
###            print '  Lluis; ' + fname + ' A found lon:',projlon[ilatlon[0], ilatlon[1]], 'lat:', projlat[ilatlon[0], ilatlon[1]]
###            quit()
##                else:
#                if mindiffLl == 0. and type(newvar[ilatlon[0],ilatlon[1]]) == type(amsk): 
#                    percendone(iv,Ninpts,0.5,'done:')
#                    if mindiffLl > mindiff:
#                        print errormsg
#                        print '  ' + fname + ': for point #', iv,'lon,lat in ' +     \
#                          'incomplet map:', lonvs[iv], ',', latvs[iv], 'there is ' + \
#                          'not a set of lon,lat in the completed map closer than: ', \
#                          mindiff, '!!'
#                        print '    minimum difference:', mindiffLl
#                        quit(-1)

#                    if ilatlon[0] >= 0 and ilatlon[1] >= 0:
#                        newvar[ilatlon[0],ilatlon[1]] = ovar[iv]
#                        newvarin[ilatlon[0],ilatlon[1]] = iv
#                        newvarinpt[iv] = 1
#                        newvarindiff[iv] = mindiffLl
##                        print 'Lluis iv:', newvarin[ilatlon[0],ilatlon[1]],          \
##                          'localized:', newvarinpt[iv], 'values:',                   \
##                          newvar[ilatlon[0],ilatlon[1]], 'invalues:', ovar[iv],      \
##                          'mindist:', newvarindiff[iv], 'point:',ilatlon    
#                    else:
#                        print errormsg
#                        print '  ' + fname + ': point iv:', iv, 'at', lonvs[iv], ',',\
#                          latvs[iv],' not relocated !!'
#                        print '    mindiffl:', mindiffLl, 'ilon:', ilatlon[1],       \
#                          'ilatlon:', ilatlon[1]
#                        quit(-1)

#                if np.mod(iv,1000) == 0: 
#                    newnc.sync()
##                    print '  ' + fname + 'values localized:', newvar[:].compressed()
##                if iv > 10:
##                    newnc.sync()
##                    newnc.close()
##                    quit(-1)

    elif kind == 'lonlat':
        for iv in range(Ntotvals):
            difflat = np.abs(projlat - latvs[iv])
            mindiffL = np.min(difflat)
            ilat = index_mat(difflat, mindiffL)
            difflon = np.abs(projlon - lonvs[iv])
            mindiffl = difflon.min()
            ilon = index_mat(difflon, mindiffl)
            percendone(iv,Ntotvals,0.5,'done:')
            if mindiffl > mindiff or mindiffL > mindiff:
                print errormsg
                print '  ' + fname + ': for point #', iv,'lon,lat in incomplet map:',   \
                  lonvs[iv], ',', latvs[iv], 'there is not a set of lon,lat in the ' +  \
                  'completed map closer than: ', mindiff, '!!'
                print '    minimum difflon:', np.min(difflon), 'difflat:', np.min(difflat)
                quit()

            if ilon >= 0 and ilat >= 0:
                newvar[ilat,ilon] = ovar[iv]         
                newnc.sync()
            else:
                print errormsg
                print '  ' + fname + ': point iv:',iv,'at',lonvs[iv],',',latvs[iv],' not relocated !!'
                print '    mindiffl:',mindiffl,'mindiffL:',mindiffL,'ilon:',ilon,'ilat:',ilat
                quit(-1)

        newnc.sync()

    elif kind == 'lonlat_dxdyFix':

        for iv in range(Ntotvals):
#        for iv in range(15):
#            print 'Lluis:',iv,'lon lat:',lonvs[iv],',',latvs[iv]
            difflat = np.abs(projlat - latvs[iv])
            mindiffL = np.min(difflat)
            ilat = index_mat(difflat, mindiffL)
#            print '  Lluis mindiffL:',mindiffL,'<> ilat:',ilat,'lat_ilat:',projlat[ilat],'Nprojlon:',Nprojlon[ilat],'shape oporjlon:',oprojlon[ilat,:].shape, type(oprojlon[ilat,:])
            loncirc = np.zeros((Nprojlon[ilat]), dtype=np.float)
            loncirc[:] = np.asarray(oprojlon[ilat,0:int(Nprojlon[ilat])].flatten())
            difflon = np.abs(loncirc - lonvs[iv])
            mindiffl = difflon.min()
            ilon = index_mat(difflon, mindiffl)
#            print '  difflon:',type(difflon),'shape difflon',difflon.shape,'shape loncirc:', loncirc.shape
#            print '  Lluis mindiffl:',mindiffl,'<> ilon:',ilon,'oprojlon:', loncirc[ilon]

            percendone(iv,Ntotvals,0.5,'done:')
            if mindiffl > mindiff or mindiffL > mindiff:
                print errormsg
                print '  ' + fname + ': for point #', iv,'lon,lat in incomplet map:',   \
                  lonvs[iv], ',', latvs[iv], 'there is not a set of lon,lat in the ' +  \
                  'completed map closer than: ', mindiff, '!!'
                print '    minimum difflon:', np.min(difflon), 'difflat:', np.min(difflat)
                quit()

            if ilon >= 0 and ilat >= 0:
                if Lmapvalsshape ==1:
                    newvar[iv] = ovar[iv]            
                newnc.sync()
            else:
                print errormsg
                print '  ' + fname + ': point iv:',iv,'at',lonvs[iv],',',latvs[iv],' not relocated !!'
                print '    mindiffl:',mindiffl,'mindiffL:',mindiffL,'ilon:',ilon,'ilat:',ilat
                quit(-1)

        newnc.sync()
# Global attributes
##
    newnc.setncattr('script',  fname)
    newnc.setncattr('version',  '1.0')
    newnc.setncattr('author',  'L. Fita')
    newattr = set_attributek(newnc, 'institution', unicode('Laboratoire de M' +      \
      unichr(233) + 't' + unichr(233) + 'orologie Dynamique'), 'U')
    newnc.setncattr('university',  'Pierre et Marie Curie')
    newnc.setncattr('country',  'France')
    for attrs in onc.ncattrs():
        attrv = onc.getncattr(attrs)
        attr = set_attribute(newnc, attrs, attrv)

    newnc.sync()
    onc.close()
    newnc.close()

    print fname + ": Successfull written of file: '" + ofile + "' !!"

    return 

def Partialmap_EntiremapFor(values, filen, varn):
    """ Function to transform from a partial global map (e.g.: only land points) to an entire one usinf Fortran code
      Coincidence of points is done throughout a first guess from fractions of the total domain of search
      Using fortran codes: module_ForInterpolate.F90, module_generic.F90
      foudre: f2py -m module_ForInterpolate --f90exec=/usr/bin/gfortran-4.7 -c module_generic.F90 module_ForInterpolate.F90  >& run_f2py.log
      ciclad: f2py --f90flags="-fPIC" -L/opt/canopy-1.3.0/Canopy_64bit/System/lib/ -L/usr/lib64/ -L/opt/canopy-1.3.0/Canopy_64bit/System/lib/ -m module_ForInterpolate -c module_generic.F90 module_ForInterpolate.F90 
      values= [lonmame],[latname],[fillVal],[resolution],[kind],[lonlatProjfile],[ipoint],[fracd],[fracs],[mindiff]
        [lonname]: name of the longitude variable
        [latname]: name of the latitude variable
        [fillVal]: value for '_FillValue', 'std' for the standard value
           Float = 1.e20
           Character = '-'
           Integer = -99999
           Float64 = 1.e20
           Integer32 = -99999
        [resolution]: resolution of the map
        [kind]: kind of target projection
         'lonlat': standard lon/lat projection tacking number of points from [dx/dy]res at the Equator
         'lonlatfrac': standard lon/lat projection tacking number of points from [dx/dy]res at the Equator with
            mnultiple values at the target interpolation grid [kind]@[Ntypes]
              [Ntypes]: Number of types at each grid-point
         'lonlat_dxdyFix': projection with a fixed grid distance
         'Goode': Goode projection
        [lonlatProjfile]: file with the lon,lat of the desired projection. 'None' to be computed and written on fly
        [ipoint]: initial point to use for the interpolation (0, the first)
        [fracd]: Percentage of the fractions within perform the first guess search
        [fracs]: Number of grid points to perform the syncronization with the file and the computed values
        [mindiff]: Authorized minium distance between input and final lon,lat point
      filen= name of the netCDF file
      varn= name of the variable
    """
    import module_ForInterpolate as fin
    import numpy.ma as ma
    import subprocess as sub

    fname = 'Partialmap_Entiremap'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print Partialmap_Entiremap.__doc__
        quit()

    arguments = '[lonmame],[latname],[fillVal],[resolution],[kind],' +               \
      '[lonlatProjfile],[ipoint],[fracd],[fracs],[mindiff]'
    gen.check_arguments(fname, values, arguments, ',')

    ofile = 'EntireGlobalMap.nc'

    onc = NetCDFFile(filen, 'r')
    if not onc.variables.has_key(varn):
        print errormsg
        print '  ' + fname + ": file '" + filen + "' does not have " +       \
          "variable '" + varn + "' !!"
        quit(-1)

    lonname = values.split(',')[0]
    latname = values.split(',')[1]
    fval0 = values.split(',')[2]
    resolution = np.float(values.split(',')[3])
    kind0 = values.split(',')[4]
    Projfile = values.split(',')[5]
    ipoint = int(values.split(',')[6])
    fracd = np.float64(values.split(',')[7])
    fracs = int(values.split(',')[8])
    mindiff = np.float64(values.split(',')[9])

    if Projfile == 'None':
        lonlatProjfile = None
    else:
        lonlatProjfile = Projfile

    if kind0.find('@') != -1: 
        kind = kind0.split('@')[0]
        Ntypes = np.int(kind0.split('@')[1])
    else:
        kind = kind0

    Lkind = len(kind)
    if kind[Lkind-4:Lkind] == 'frac' and kind0.find('@') == -1:
        print errormsg
        print '  ' + fname + ": there is a fractional kind of interpolation '" +     \
          kind + "' but no number of types has been privided!!"
        print "    when [kind] is provided, should be '[kind]@[Ntypes]'"
        quit()

    if not onc.variables.has_key(lonname):
        print errormsg
        print '  ' + fname + ": file '" + filen + "' does not have " +       \
          "longitude '" + lonname + "' !!"
        quit(-1)
    if not onc.variables.has_key(latname):
        print errormsg
        print '  ' + fname + ": file '" + filen + "' does not have " +       \
          "latitude '" + latname + "' !!"
        quit(-1)

    olon = onc.variables[lonname]
    olat = onc.variables[latname]

    lonvs = olon[:]
    latvs = olat[:]

    Ninpts = len(lonvs)

    nlat = np.min(latvs)
    nlon = np.min(lonvs)

    minlat = np.min(np.abs(latvs))
    minlon = np.min(np.abs(lonvs))

    ivtest = 2198
#    mindiff = np.min([minlat, minlon])/1.
    mindiffin = np.sqrt(minlat*minlat + minlon*minlon)
    print '  ' + fname + ': Longitudes minimum:', np.min(lonvs), 'max:', np.max(lonvs)
    print '  ' + fname + ': Latitudes minimum:', np.min(latvs), 'max:', np.max(latvs)
    print 'Lluis lon/lat ivtest:',lonvs[ivtest],',',latvs[ivtest]

    print '  ' + fname + ': Closest latitude to Equator:', minlat
    print '  ' + fname + ': Closest longitude to Greenwich Meridian:', minlon
    print '  ' + fname + ': Minium distance for point coincidence:', mindiff

# Existing longitudes along/closest to the Equator
    eqlons = []
    for i in range(len(latvs)):
        if latvs[i] == minlat: eqlons.append(lonvs[i])

# Existing latitudes along/closest to the Greenwich Meridian
    grlats = []
    for i in range(len(lonvs)):
        if lonvs[i] == minlon: grlats.append(latvs[i])

    sorteqlons = np.sort(eqlons)
    sortgrlats = np.sort(grlats)
 
    Neqlons = len(sorteqlons)
    Ngrlats = len(sortgrlats)

    if Neqlons > 1:
        diffeqlons = sorteqlons[1:Neqlons-1] - sorteqlons[0:Neqlons-2]     
        mindeqlon = np.min(diffeqlons)
        print 'N sorteqlons:',Neqlons,'min deqlon:', mindeqlon
    else:
        mindeqlon = None

    if Ngrlats > 1:
        mindgrlat = np.min(diffgrlats)
        diffgrlats = sortgrlats[1:Ngrlats-1] - sortgrlats[0:Ngrlats-2]
        print 'N sortgrlats:',Ngrlats,'min dgrlat:', mindgrlat
        latmap = np.range(0,360.,360./mindeqlon)
    else:
        mindgrlat = None

# Fixing in case it has not worked
    if mindeqlon is not None and mindgrlat is None: mindgrlat = mindeqlon
    if mindeqlon is None and mindgrlat is not None: mindeqlon = mindgrlat
    if mindeqlon is None and mindgrlat is None:
        print errormsg
        print fname + ': Not enough values along the Equator and Greenwich!!'
        quit(-1)

    if lonlatProjfile is None or not os.path.isfile(lonlatProjfile):
        if lonlatProjfile is None: lonlatProjfile = kind + '.nc'
        print warnmsg
        print '  ' + fname + ": no reference map !!"
        print "    creation of '" + lonlatProjfile + "'"
        print '    creating it via: lonlatProj(', resolution, ',', resolution,       \
          ', ' + kind + ', True)'
        if kind[Lkind-4:Lkind] == 'frac':
            lonmap, latmap = lonlatProj(resolution, resolution, kind[0:Lkind-4], True)
        else:
            lonmap, latmap = lonlatProj(resolution, resolution, kind, True)
        sub.call(['mv','lonlatProj.nc', lonlatProjfile])

    oproj = NetCDFFile(lonlatProjfile, 'r')
    if kind == 'Goode':
        olon = oproj.variables['lon']
        olat = oproj.variables['lat']
        lonmap = olon[:]
        latmap = olat[:]
        projlon = olon[:].astype('float64')
        projlat = olat[:].astype('float64')
        omapvals = oproj.variables['ptid']
        Ntotvals = omapvals.shape[0] * omapvals.shape[1]
        Nmaplon = olon.shape[1]
        Nmaplat = olat.shape[0]

    elif kind == 'lonlat':
        olon = oproj.variables['lon']
        olat = oproj.variables['lat']
        lonmap = olon[:]
        latmap = olat[:]
        projlon = olon[:]
        projlat = olat[:]
        omapvals = oproj.variables['points']
        Ntotvals = omapvals.shape[0] * omapvals.shape[1]
        Nmaplon = olon.shape[0]
        Nmaplat = olat.shape[0]

    elif kind == 'lonlatfrac':
        olon = oproj.variables['lon']
        olat = oproj.variables['lat']
        lonmap = olon[:]
        latmap = olat[:]
        projlon = olon[:]
        projlat = olat[:]
        omapvals = oproj.variables['points']
        Ntotvals = omapvals.shape[0] * omapvals.shape[1]
        Nmaplon = olon.shape[0]
        Nmaplat = olat.shape[0]

    elif kind == 'lonlat_dxdyFix':
        oprojlon = oproj.variables['loncirc']
        oprojlat = oproj.variables['latcirc']
        oNprojlon = oproj.variables['Nloncirc']
        projlat = oprojlat[:]
        Nprojlon = oNprojlon[:]
        Ntotvals = len(oproj.dimensions['Npts'])
        olon = oproj.variables['lon']
        olat = oproj.variables['lat']
        lonmap = olon[:]
        latmap = olat[:]
        omapvals = oproj.variables['points']

#    Ntotvals = len(lonmap)
        Nmaplon = Ntotvals
        Nmaplat = Ntotvals
    else:
        print errormsg
        print '  ' + fname + ": projection kind '" + kind + "' not ready!!"
        quit(-1)

    sortedlonmap = np.sort(lonmap)
    sortedlatmap = np.sort(latmap)
    Nsortlonm = len(sortedlonmap)
    Nsortlatm = len(sortedlatmap)

    diffsortlon = sortedlonmap[1:Nsortlonm-1]-sortedlonmap[0:Nsortlonm-2]
    diffsortlat = sortedlatmap[1:Nsortlatm-1]-sortedlatmap[0:Nsortlatm-2]

    mindifflonmap = np.min(diffsortlon)
    maxdifflonmap = np.max(diffsortlon)
    mindifflatmap = np.min(diffsortlat)
    maxdifflatmap = np.max(diffsortlat)

    mindiffmap = np.sqrt(mindifflonmap*mindifflonmap+mindifflatmap*mindifflatmap)
    maxdiffmap = np.sqrt(maxdifflonmap*maxdifflonmap+maxdifflatmap*maxdifflatmap)

    print '  ' + fname + ': minimum distance in target projection:', mindiffmap,     \
      'maximum:', maxdiffmap
# Matrix map creation
##
    ovar = onc.variables[varn]
    vartype = type(ovar[0])
    varlongname = ovar.long_name
    varunits = ovar.units

    print 'Lluis ovar[ivtest]:',ovar[ivtest]
    quit()

    fval = gen.fillvalue_kind(type(ovar[0]), fval0)
    
# Final map creation
##
    if not os.path.isfile(ofile):
        print '  ' + fname + "File '" + ofile + "' does not exist !!"
        print '    cration of output file'
        newnc = NetCDFFile(ofile, 'w')
# dimensions
        newdim = newnc.createDimension('lon',Nmaplon)
        newdim = newnc.createDimension('lat',Nmaplat)
        newdim = newnc.createDimension('inpts', Ninpts)
        newdim = newnc.createDimension('pts', Ntotvals)

# Variables
        if kind == 'Goode':
            newvar = newnc.createVariable('lon','f8',('lat', 'lon'))
        else:
            newvar = newnc.createVariable('lon','f8',('lon'))
        basicvardef(newvar, 'longitude', 'Longitude','degrees_East')
        newvar[:] = lonmap
        newvar.setncattr('axis', 'X')
        newvar.setncattr('_CoordinateAxisType', 'Lon')   

        if kind == 'Goode':
            newvar = newnc.createVariable('lat','f8',('lat','lon'))
        else:
            newvar = newnc.createVariable('lat','f8',('lat'))
        basicvardef(newvar, 'latitude', 'Latitude','degrees_North')
        newvar[:] = latmap
        newvar.setncattr('axis', 'Y')
        newvar.setncattr('_CoordinateAxisType', 'Lat')   

        newvarinpt = newnc.createVariable('locinpt','i',('inpts'))
        basicvardef(newvarinpt, 'locinpt', 'input point located: 0: no, 1: yes','-')

        newvarindiff = newnc.createVariable('locindiff','f4',('inpts'))
        basicvardef(newvarindiff, 'locindiff', 'distance between input point and ' + \
          'its final location','degree')
        set_attributek(newvarindiff,'authorized_minimum_distance',mindiff,'R')

# map variable
        Lmapvalsshape = len(omapvals.shape)
        if Lmapvalsshape == 1:
            newvar = newnc.createVariable(varn, nctype(vartype), ('pts'),            \
              fill_value=fval)
        else:
            if kind[Lkind-4:Lkind] == 'frac':
                newdim = newnc.createDimension('Ntypes', Ntypes)
                newvar = newnc.createVariable(varn, 'f4', ('Ntypes','lat','lon'),    \
                  fill_value=gen.fillvalue_kind(type(1.), fval0))
            else:
                newvar = newnc.createVariable(varn, nctype(vartype), ('lat','lon'),  \
                  fill_value=fval)

        basicvardef(newvar, varn, varlongname, varunits)
        newvar.setncattr('coordinates', 'lon lat')

        if Lmapvalsshape == 1:
            newvarin = newnc.createVariable('inpts', 'i4', ('pts'))    
        else:
            if kind[Lkind-4:Lkind] == 'frac':
                Nmaxcoinpt = np.int((maxdiffmap/mindiffin)*(maxdiffmap/mindiffin))
                print '  ' + fname + ': maximum theoretical number of coincident '   + \
                  'grid points in the same target gid point:', Nmaxcoinpt
                newdim = newnc.createDimension('Ncoinpt', Nmaxcoinpt)
                newvarin = newnc.createVariable('inpts', 'i4', ('Ncoinpt','lat',     \
                  'lon'))
                basicvardef(newvarin, 'inpts', 'Equivalent points from the input '   + 
                  'source', '-')
            else:
                newvarin = newnc.createVariable('inpts', 'i4', ('lat','lon'))
                basicvardef(newvarin, 'inpts', 'Equivalent point from the input ' +  \
                  'source', '-')

        newvar.setncattr('coordinates', 'lon lat')
        newvarin.setncattr('coordinates', 'lon lat')

    else:
        print '  ' + fname + "File '" + ofile + "' exists !!"
        print '    reading values from file'
        newnc = NetCDFFile(ofile, 'a')
        newvar = newnc.variables[varn]
        newvarin = newnc.variables['inpts']
        newvarinpt = newnc.variables['locinpt']
        newvarindiff = newnc.variables['locindiff']

    amsk = np.arange(3)
    amsk = ma.masked_equal(amsk, 0)

#    fraclon = projlon[::Nmaplon*0.1]
#    fraclat = projlat[::Nmaplat*0.1]

#    print 'fraclon________________', fraclon.shape
#    print fraclon

#    print 'fraclat________________', fraclat.shape
#    print fraclat

# Reducing the searching points
    Nsearchpt = 999999
    Ninpts=np.min([Nsearchpt, Ninpts-ipoint])
    newvarinvals = newvarinpt[ipoint:ipoint+Ninpts]
    maskpt = np.where(newvarinvals.mask == True, False, True)
    points = np.arange(ipoint,ipoint+Ninpts,1)
    mapoints = ma.array(points, mask=maskpt)
    ptsf = mapoints.compressed()

    Nptsf = len(ptsf)
    print Ninpts,'Npoints to find:', len(ptsf), ptsf[0:10], newvarindiff[ptsf[0:10]]
    ipoint = ptsf[0]
    Ninpts=np.min([Nsearchpt, Ninpts-ipoint])
# Error at 150024, 150025, 151709, 153421
    print '  ' + fname + ': from:', Ninpts,'re-locating:',Nptsf,'points...'
    if kind == 'Goode':
#        newvar,newvarin,newvarinpt,newvarindiff =                                    \
#          fin.module_forinterpolate.coarseinterpolate(projlon, projlat, lonvs,       \
#          latvs, percen, mindiff, ivar, dimx, dimy, ninpts)
        for ir in range(ipoint,Ninpts,fracs):
            iri = ir
            ire = ir + fracs + 1
            print iri,',',ire
#            percendone(iri,Ninpts,0.5,'done:')
            pts = np.arange(iri,ire,1, dtype='int32')
            lonvss = lonvs[iri:ire].astype('float64')
            latvss = latvs[iri:ire].astype('float64')
            ovars = ovar[iri:ire].astype('float64')

            newvar,newvarin,newvarinpt[pts],newvarindiff[pts] =                      \
              fin.module_forinterpolate.coarseinterpolate(projlon, projlat,          \
              lonvss, latvss, np.float64(fracd), np.float64(mindiff), ovars)
# Slow way
#            newvar,newvarin,newvarinpt[pts],newvarindiff[pts] =                      \
#              fin.module_forinterpolate.interpolate(projlon, projlat,                \
#              lonvss, latvss, np.float64(mindiff), ovars)
            newnc.sync()

    elif kind == 'lonlat':
        for ir in range(ipoint,ipoint+Ninpts,fracs):
            iri = ir
            ire = ir + fracs
            print iri,',',ire
#            percendone(iri,Ninpts,0.5,'done:')
            lonvss = lonvs[iri:ire+1].astype('float64')
            latvss = latvs[iri:ire+1].astype('float64')
            inptss = newvarinpt[iri:ire+1].astype('int32')

            idiff, ilonlatv = fin.module_forinterpolate.interpolate1dll(projlon,     \
              projlat, lonvss, latvss, np.float64(mindiff), inptss)

            for i in range(np.min([len(idiff),fracs])):
#                print 'Lluis:',ilonlatv[i,1],',',ilonlatv[i,0]
                newvar[ilonlatv[i,1],ilonlatv[i,0]] = ovar[iri + i]
                newvarin[ilonlatv[i,1],ilonlatv[i,0]] = iri + i
                newvarinpt[iri+i] = 1
                newvarindiff[iri+i] = idiff[i]

            newnc.sync()
#            newnc.close()
#            quit()

    elif kind == 'lonlatfrac':
        for ir in range(ipoint,ipoint+Ninpts,fracs):
            iri = ir
            ire = ir + fracs
            print iri,',',ire
#            percendone(iri,Ninpts,0.5,'done:')
            lonvss = lonvs[iri:ire+1].astype('float64')
            latvss = latvs[iri:ire+1].astype('float64')
            inptss = newvarinpt[iri:ire+1].astype('int32')

            idiff, ilonlatv = fin.module_forinterpolate.interpolate1dll(projlon,     \
              projlat, lonvss, latvss, np.float64(mindiff), inptss)
# Fortran routine provides ranges from 1,dimx!
            ilonlatv = ilonlatv - 1

            for i in range(np.min([len(idiff),fracs])):
                if type(newvar[ovar[iri+i]-1,ilonlatv[i,1],ilonlatv[i,0]]) ==        \
                  type(ma.array(1)) and newvar[ovar[iri+i]-1,ilonlatv[i,1],          \
                  ilonlatv[i,0]].mask: 
                    newvar[ovar[iri+i]-1,ilonlatv[i,1],ilonlatv[i,0]].mask = False
                    newvar[ovar[iri+i]-1,ilonlatv[i,1],ilonlatv[i,0]] = 1.
                    newvarin[0,ilonlatv[i,1],ilonlatv[i,0]] = iri + i
                else:
                    Npt = np.sum(newvarin[:,ilonlatv[i,1],ilonlatv[i,0]] > 0)
                    print ilonlatv[i,1],ilonlatv[i,0],'Npt:',Npt
                    print newvarin[:,ilonlatv[i,1],ilonlatv[i,0]]
                    newvar[ovar[iri+i]-1,ilonlatv[i,1],ilonlatv[i,0]] =                \
                      newvar[ovar[iri+i]-1,ilonlatv[i,1],ilonlatv[i,0]] + 1.
                    newvarin[Npt+1,ilonlatv[i,1],ilonlatv[i,0]] = iri + i
                newvarinpt[iri+i] = 1
                newvarindiff[iri+i] = idiff[i]

            newnc.sync()
            if ire > ivtest:
                print 'iv:',ivtest,'lon lat:',lonvs[ivtest],',',latvs[ivtest]
                print 'ilonlat:',ilonlatv[ivtest,:],'lonlat proj:', projlon[ilonlatv[ivtest,0]],',',     \
                  projlat[ilonlatv[ivtest,1]],'diff:',newvarindiff[ivtest]
                newnc.close()
                quit()
#            newnc.close()
#            quit()

    elif kind == 'lonlat_dxdyFix':

        for iv in range(Ntotvals):
#        for iv in range(15):
#            print 'Lluis:',iv,'lon lat:',lonvs[iv],',',latvs[iv]
            difflat = np.abs(projlat - latvs[iv])
            mindiffL = np.min(difflat)
            ilat = index_mat(difflat, mindiffL)
#            print '  Lluis mindiffL:',mindiffL,'<> ilat:',ilat,'lat_ilat:',projlat[ilat],'Nprojlon:',Nprojlon[ilat],'shape oporjlon:',oprojlon[ilat,:].shape, type(oprojlon[ilat,:])
            loncirc = np.zeros((Nprojlon[ilat]), dtype=np.float)
            loncirc[:] = np.asarray(oprojlon[ilat,0:int(Nprojlon[ilat])].flatten())
            difflon = np.abs(loncirc - lonvs[iv])
            mindiffl = difflon.min()
            ilon = index_mat(difflon, mindiffl)
#            print '  difflon:',type(difflon),'shape difflon',difflon.shape,'shape loncirc:', loncirc.shape
#            print '  Lluis mindiffl:',mindiffl,'<> ilon:',ilon,'oprojlon:', loncirc[ilon]

            percendone(iv,Ntotvals,0.5,'done:')
            if mindiffl > mindiff or mindiffL > mindiff:
                print errormsg
                print '  ' + fname + ': for point #', iv,'lon,lat in incomplet map:',   \
                  lonvs[iv], ',', latvs[iv], 'there is not a set of lon,lat in the ' +  \
                  'completed map closer than: ', mindiff, '!!'
                print '    minimum difflon:', np.min(difflon), 'difflat:', np.min(difflat)
                quit()

            if ilon >= 0 and ilat >= 0:
                if Lmapvalsshape ==1:
                    newvar[iv] = ovar[iv]            
                newnc.sync()
            else:
                print errormsg
                print '  ' + fname + ': point iv:',iv,'at',lonvs[iv],',',latvs[iv],' not relocated !!'
                print '    mindiffl:',mindiffl,'mindiffL:',mindiffL,'ilon:',ilon,'ilat:',ilat
                quit(-1)

        newnc.sync()
# Global attributes
##
    newnc.setncattr('script',  fname)
    newnc.setncattr('version',  '1.0')
    newnc.setncattr('author',  'L. Fita')
    newattr = set_attributek(newnc, 'institution', unicode('Laboratoire de M' +      \
      unichr(233) + 't' + unichr(233) + 'orologie Dynamique'), 'U')
    newnc.setncattr('university',  'Pierre et Marie Curie')
    newnc.setncattr('country',  'France')
    for attrs in onc.ncattrs():
        attrv = onc.getncattr(attrs)
        attr = set_attribute(newnc, attrs, attrv)

    newnc.sync()
    onc.close()
    newnc.close()

    print fname + ": Successfull written of file: '" + ofile + "' !!"

    return 

def Partialmap_EntiremapForExact(values, filen, varn):
    """ Function to transform from a partial global map (e.g.: only land points) to an entire one using Fortran code with exact location
      Coincidence of points is done throughout a first guess from fractions of the total domain of search
      Using fortran codes: module_ForInterpolate.F90, module_generic.F90
      foudre: f2py -m module_ForInterpolate --f90exec=/usr/bin/gfortran-4.7 -c module_generic.F90 module_ForInterpolate.F90  >& run_f2py.log
      ciclad: f2py --f90flags="-fPIC" -L/opt/canopy-1.3.0/Canopy_64bit/System/lib/ -L/usr/lib64/ -L/opt/canopy-1.3.0/Canopy_64bit/System/lib/ -m module_ForInterpolate -c module_generic.F90 module_ForInterpolate.F90 
      values= [lonmame],[latname],[fillVal],[resolution],[kind],[lonlatProjfile],[ipoint],[fracd],[fracs],[mindiff]
        [lonname]: name of the longitude variable
        [latname]: name of the latitude variable
        [fillVal]: value for '_FillValue', 'std' for the standard value
           Float = 1.e20
           Character = '-'
           Integer = -99999
           Float64 = 1.e20
           Integer32 = -99999
        [resolution]: resolution of the map
        [kind]: kind of target projection
         'lonlat': standard lon/lat projection tacking number of points from [dx/dy]res at the Equator
         'lonlat_dxdyFix': projection with a fixed grid distance
         'Goode': Goode projection
        [lonlatProjfile]: file with the lon,lat of the desired projection. 'None' to be computed and written on fly
        [ipoint]: initial point to use for the interpolation (0, the first)
        [fracd]: Percentage of the fractions within perform the first guess search
        [fracs]: Number of grid points to perform the syncronization with the file and the computed values
        [mindiff]: Authorized minium distance between input and final lon,lat point
      filen= name of the netCDF file
      varn= name of the variable
    """
    import module_ForInterpolate as fin
    import numpy.ma as ma
    import subprocess as sub

    fname = 'Partialmap_EntiremapFortran'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print Partialmap_Entiremap.__doc__
        quit()

    arguments = '[lonmame],[latname],[fillVal],[resolution],[kind],' +               \
      '[lonlatProjfile],[ipoint],[fracd],[fracs],[mindiff]'
    gen.check_arguments(fname, values, arguments, ',')

    ofile = 'EntireGlobalMap.nc'

    onc = NetCDFFile(filen, 'r')
    if not onc.variables.has_key(varn):
        print errormsg
        print '  ' + fname + ": file '" + filen + "' does not have " +       \
          "variable '" + varn + "' !!"
        quit(-1)

    lonname = values.split(',')[0]
    latname = values.split(',')[1]
    fval0 = values.split(',')[2]
    resolution = np.float(values.split(',')[3])
    kind = values.split(',')[4]
    Projfile = values.split(',')[5]
    ipoint = int(values.split(',')[6])
    fracd = np.float64(values.split(',')[7])
    fracs = int(values.split(',')[8])
    mindiff = np.float64(values.split(',')[9])

    if Projfile == 'None':
        lonlatProjfile = None
    else:
        lonlatProjfile = Projfile

    if not onc.variables.has_key(lonname):
        print errormsg
        print '  ' + fname + ": file '" + filen + "' does not have " +       \
          "longitude '" + lonname + "' !!"
        quit(-1)
    if not onc.variables.has_key(latname):
        print errormsg
        print '  ' + fname + ": file '" + filen + "' does not have " +       \
          "latitude '" + latname + "' !!"
        quit(-1)

    olon = onc.variables[lonname]
    olat = onc.variables[latname]

    lonvs = olon[:]
    latvs = olat[:]

    Ninpts = len(lonvs)

    nlat = np.min(latvs)
    nlon = np.min(lonvs)

    minlat = np.min(np.abs(latvs))
    minlon = np.min(np.abs(lonvs))

    print '  ' + fname + ': Closest latitude to Equator:', minlat
    print '  ' + fname + ': Closest longitude to Greenwich Meridian:', minlon
    print '  ' + fname + ': Minium distance for point coincidence:', mindiff

# Existing longitudes along/closest to the Equator
    eqlons = []
    for i in range(len(latvs)):
        if latvs[i] == minlat: eqlons.append(lonvs[i])

# Existing latitudes along/closest to the Greenwich Meridian
    grlats = []
    for i in range(len(lonvs)):
        if lonvs[i] == minlon: grlats.append(latvs[i])

    sorteqlons = np.sort(eqlons)
    sortgrlats = np.sort(grlats)
 
    Neqlons = len(sorteqlons)
    Ngrlats = len(sortgrlats)

    if Neqlons > 1:
        diffeqlons = sorteqlons[1:Neqlons-1] - sorteqlons[0:Neqlons-2]     
        mindeqlon = np.min(diffeqlons)
        print 'N sorteqlons:',Neqlons,'min deqlon:', mindeqlon
    else:
        mindeqlon = None

    if Ngrlats > 1:
        mindgrlat = np.min(diffgrlats)
        diffgrlats = sortgrlats[1:Ngrlats-1] - sortgrlats[0:Ngrlats-2]
        print 'N sortgrlats:',Ngrlats,'min dgrlat:', mindgrlat
        latmap = np.range(0,360.,360./mindeqlon)
    else:
        mindgrlat = None

# Fixing in case it has not worked
    if mindeqlon is not None and mindgrlat is None: mindgrlat = mindeqlon
    if mindeqlon is None and mindgrlat is not None: mindeqlon = mindgrlat
    if mindeqlon is None and mindgrlat is None:
        print errormsg
        print fname + ': Not enough values along the Equator and Greenwich!!'
        quit(-1)

    if lonlatProjfile is None:
        lonlatProjfile = kind + '.nc'
        print warnmsg
        print '  ' + fname + ": no reference map !!"
        print "    creation of '" + lonlatProjfile + "'"
        print '    creating it via: lonlatProj(', resolution, ',', resolution,       \
          ', ' + kind + ', True)'
        lonmap, latmap = lonlatProj(resolution, resolution, kind, True)
        sub.call(['mv','lonlatProj.nc',lonlatProjfile])

    oproj = NetCDFFile(lonlatProjfile, 'r')
    if kind == 'Goode':
        olon = oproj.variables['lon']
        olat = oproj.variables['lat']
        lonmap = olon[:]
        latmap = olat[:]
        projlon = olon[:].astype('float64')
        projlat = olat[:].astype('float64')
        omapvals = oproj.variables['ptid']
        Ntotvals = omapvals.shape[0] * omapvals.shape[1]
        Nmaplon = olon.shape[1]
        Nmaplat = olat.shape[0]

    elif kind == 'lonlat':
        olon = oproj.variables['lon']
        olat = oproj.variables['lat']
        lonmap = olon[:]
        latmap = olat[:]
        projlon = olon[:]
        projlat = olat[:]
        omapvals = oproj.variables['points']
        Ntotvals = omapvals.shape[0] * omapvals.shape[1]
        Nmaplon = olon.shape[0]
        Nmaplat = olat.shape[0]

    elif kind == 'lonlat_dxdyFix':
        oprojlon = oproj.variables['loncirc']
        oprojlat = oproj.variables['latcirc']
        oNprojlon = oproj.variables['Nloncirc']
        projlat = oprojlat[:]
        Nprojlon = oNprojlon[:]
        Ntotvals = len(oproj.dimensions['Npts'])
        olon = oproj.variables['lon']
        olat = oproj.variables['lat']
        lonmap = olon[:]
        latmap = olat[:]
        omapvals = oproj.variables['points']

#    Ntotvals = len(lonmap)
        Nmaplon = Ntotvals
        Nmaplat = Ntotvals
    else:
        print errormsg
        print '  ' + fname + ": projection kind '" + kind + "' not ready!!"
        quit(-1)

# Matrix map creation
##
    ovar = onc.variables[varn]
    vartype = type(ovar[0])
    varlongname = ovar.long_name
    varunits = ovar.units

    fval = gen.fillvalue_kind(type(ovar[0]), fval0)

# Final map creation
##
    if not os.path.isfile(ofile):
        print '  ' + fname + "File '" + ofile + "' does not exist !!"
        print '    cration of output file'
        newnc = NetCDFFile(ofile, 'w')
# dimensions
        newdim = newnc.createDimension('lon',Nmaplon)
        newdim = newnc.createDimension('lat',Nmaplat)
        newdim = newnc.createDimension('inpts', Ninpts)
        newdim = newnc.createDimension('pts', Ntotvals)

# Variables
        if kind == 'Goode':
            newvar = newnc.createVariable('lon','f8',('lat', 'lon'))
        else:
            newvar = newnc.createVariable('lon','f8',('lon'))
        basicvardef(newvar, 'longitude', 'Longitude','degrees_East')
        newvar[:] = lonmap
        newvar.setncattr('axis', 'X')
        newvar.setncattr('_CoordinateAxisType', 'Lon')   

        if kind == 'Goode':
            newvar = newnc.createVariable('lat','f8',('lat','lon'))
        else:
            newvar = newnc.createVariable('lat','f8',('lat'))
        basicvardef(newvar, 'latitude', 'Latitude','degrees_North')
        newvar[:] = latmap
        newvar.setncattr('axis', 'Y')
        newvar.setncattr('_CoordinateAxisType', 'Lat')   

        newvarinpt = newnc.createVariable('locinpt','i',('inpts'))
        basicvardef(newvarinpt, 'locinpt', 'input point located: 0: no, 1: yes','-')

        newvarindiff = newnc.createVariable('locindiff','f4',('inpts'))
        basicvardef(newvarindiff, 'locindiff', 'distance between input point and its final location','degree')
        set_attributek(newvarindiff,'authorized_minimum_distance',mindiff,'R')

# map variable
        Lmapvalsshape = len(omapvals.shape)
        if Lmapvalsshape == 1:
            newvar = newnc.createVariable(varn, nctype(vartype), ('pts'), fill_value=fval)
        else:
            newvar = newnc.createVariable(varn, nctype(vartype), ('lat','lon'), fill_value=fval)

        basicvardef(newvar, varn, varlongname, varunits)
        newvar.setncattr('coordinates', 'lon lat')

        if Lmapvalsshape == 1:
            newvarin = newnc.createVariable('inpts', 'i4', ('pts'))    
        else:
            newvarin = newnc.createVariable('inpts', 'i4', ('lat','lon'))

        basicvardef(newvarin, 'inpts', 'Equivalent point from the input source', '-')
        newvarin.setncattr('coordinates', 'lon lat')

    else:
        print '  ' + fname + "File '" + ofile + "' exists !!"
        print '    reading values from file'
        newnc = NetCDFFile(ofile, 'a')
        newvar = newnc.variables[varn]
        newvarin = newnc.variables['inpts']
        newvarinpt = newnc.variables['locinpt']
        newvarindiff = newnc.variables['locindiff']

    amsk = np.arange(3)
    amsk = ma.masked_equal(amsk, 0)

#    fraclon = projlon[::Nmaplon*0.1]
#    fraclat = projlat[::Nmaplat*0.1]

#    print 'fraclon________________', fraclon.shape
#    print fraclon

#    print 'fraclat________________', fraclat.shape
#    print fraclat

# Reducing the searching points
    Nsearchpt = 499999
    Ninpts=np.min([Nsearchpt, Ninpts-ipoint])
    newvarinvals = newvarinpt[ipoint:ipoint+Ninpts]
    maskpt = np.where(newvarinvals.mask == True, False, True)
    points = np.arange(ipoint,ipoint+Ninpts,1)
    mapoints = ma.array(points, mask=maskpt)
    ptsf = mapoints.compressed()

    Nptsf = len(ptsf)
    print Ninpts,'Npoints to find:', len(ptsf), ptsf[0:10], newvarindiff[ptsf[0:10]]
    ipoint = ptsf[0]
    print '  ' + fname + ': from:', Ninpts,'re-locating:',Nptsf,'points starting at',\
      ipoint,'...'
    if kind == 'Goode':
#        newvar,newvarin,newvarinpt,newvarindiff =                                    \
#          fin.module_forinterpolate.coarseinterpolate(projlon, projlat, lonvs,       \
#          latvs, percen, mindiff, ivar, dimx, dimy, ninpts)
        for ir in range(ipoint,ipoint+Ninpts,fracs):
            iri = ir
            ire = ir + fracs
            print iri,',',ire
#            percendone(iri,Ninpts,0.5,'done:')
            lonvss = lonvs[iri:ire+1].astype('float64')
            latvss = latvs[iri:ire+1].astype('float64')
            inptss = newvarinpt[iri:ire+1].astype('int32')

#            newvar,newvarin,newvarinpt[pts],newvarindiff[pts] =                      \
#              fin.module_forinterpolate.coarseinterpolateexact(projlon, projlat,     \
#              lonvss, latvss, fracd, mindiff, ovars)
# Slow way
            idiff, ilonlatv = fin.module_forinterpolate.interpolate(projlon, projlat,\
              lonvss, latvss, np.float64(mindiff), inptss)
# Fortran routine provides ranges from 1,dimx!
            ilonlatv = ilonlatv - 1
            for i in range(np.min([len(idiff),fracs])):
                newvar[ilonlatv[i,0],ilonlatv[i,1]] = ovar[iri + i]
                newvarin[ilonlatv[i,0],ilonlatv[i,1]] = iri + i
                newvarinpt[iri+i] = 1
                newvarindiff[iri+i] = idiff[i]

            newnc.sync()
#            newnc.close()
#            quit()

    elif kind == 'lonlat':
        for iv in range(Ntotvals):
            difflat = np.abs(projlat - latvs[iv])
            mindiffL = np.min(difflat)
            ilat = index_mat(difflat, mindiffL)
            difflon = np.abs(projlon - lonvs[iv])
            mindiffl = difflon.min()
            ilon = index_mat(difflon, mindiffl)
            percendone(iv,Ntotvals,0.5,'done:')
            if mindiffl > mindiff or mindiffL > mindiff:
                print errormsg
                print '  ' + fname + ': for point #', iv,'lon,lat in incomplet map:',   \
                  lonvs[iv], ',', latvs[iv], 'there is not a set of lon,lat in the ' +  \
                  'completed map closer than: ', mindiff, '!!'
                print '    minimum difflon:', np.min(difflon), 'difflat:', np.min(difflat)
                quit()

            if ilon >= 0 and ilat >= 0:
                newvar[ilat,ilon] = ovar[iv]         
                newnc.sync()
            else:
                print errormsg
                print '  ' + fname + ': point iv:',iv,'at',lonvs[iv],',',latvs[iv],' not relocated !!'
                print '    mindiffl:',mindiffl,'mindiffL:',mindiffL,'ilon:',ilon,'ilat:',ilat
                quit(-1)

        newnc.sync()

    elif kind == 'lonlat_dxdyFix':

        for iv in range(Ntotvals):
#        for iv in range(15):
#            print 'Lluis:',iv,'lon lat:',lonvs[iv],',',latvs[iv]
            difflat = np.abs(projlat - latvs[iv])
            mindiffL = np.min(difflat)
            ilat = index_mat(difflat, mindiffL)
#            print '  Lluis mindiffL:',mindiffL,'<> ilat:',ilat,'lat_ilat:',projlat[ilat],'Nprojlon:',Nprojlon[ilat],'shape oporjlon:',oprojlon[ilat,:].shape, type(oprojlon[ilat,:])
            loncirc = np.zeros((Nprojlon[ilat]), dtype=np.float)
            loncirc[:] = np.asarray(oprojlon[ilat,0:int(Nprojlon[ilat])].flatten())
            difflon = np.abs(loncirc - lonvs[iv])
            mindiffl = difflon.min()
            ilon = index_mat(difflon, mindiffl)
#            print '  difflon:',type(difflon),'shape difflon',difflon.shape,'shape loncirc:', loncirc.shape
#            print '  Lluis mindiffl:',mindiffl,'<> ilon:',ilon,'oprojlon:', loncirc[ilon]

            percendone(iv,Ntotvals,0.5,'done:')
            if mindiffl > mindiff or mindiffL > mindiff:
                print errormsg
                print '  ' + fname + ': for point #', iv,'lon,lat in incomplet map:',   \
                  lonvs[iv], ',', latvs[iv], 'there is not a set of lon,lat in the ' +  \
                  'completed map closer than: ', mindiff, '!!'
                print '    minimum difflon:', np.min(difflon), 'difflat:', np.min(difflat)
                quit()

            if ilon >= 0 and ilat >= 0:
                if Lmapvalsshape ==1:
                    newvar[iv] = ovar[iv]            
                newnc.sync()
            else:
                print errormsg
                print '  ' + fname + ': point iv:',iv,'at',lonvs[iv],',',latvs[iv],' not relocated !!'
                print '    mindiffl:',mindiffl,'mindiffL:',mindiffL,'ilon:',ilon,'ilat:',ilat
                quit(-1)

        newnc.sync()
# Global attributes
##
    newnc.setncattr('script',  fname)
    newnc.setncattr('version',  '1.0')
    newnc.setncattr('author',  'L. Fita')
    newattr = set_attributek(newnc, 'institution', unicode('Laboratoire de M' +      \
      unichr(233) + 't' + unichr(233) + 'orologie Dynamique'), 'U')
    newnc.setncattr('university',  'Pierre et Marie Curie')
    newnc.setncattr('country',  'France')
    for attrs in onc.ncattrs():
        attrv = onc.getncattr(attrs)
        attr = set_attribute(newnc, attrs, attrv)

    newnc.sync()
    onc.close()
    newnc.close()

    print fname + ": Successfull written of file: '" + ofile + "' !!"

    return 

#Partialmap_Entiremap('longitude,latitude,std,5000.,Goode,Goode_5km.nc', '/home/lluis/etudes/DYNAMICO/ORCHIDEE/interpolation/data/#carteveg5km.nc', 'vegetation_map')
#Partialmap_Entiremap('longitude,latitude,std,5000.,lonlat_dxdyFix', '/home/lluis/etudes/DYNAMICO/ORCHIDEE/interpolation/data/carteveg5km.nc', 'vegetation_map')
#Partialmap_Entiremap('longitude,latitude,std,5000.,lonlat', '/home/lluis/etudes/DYNAMICO/ORCHIDEE/interpolation/data/carteveg5km.nc', 'vegetation_map')

def lonlatvarsFile(lonvals,latvals,dnx,dny,oLlnc):
    """ Function to CF-define the longitudes and latitudes variables within a file
      lonvals= 2D matrix with longitudes
      latvals= 2D matrix with latitudes
      dn[x/y]= names of the x and y dimensions
      oLlnc= netCDF file object where to write the lon,lats
    """
    fname = 'lonlatvarsFile'

    if len(lonvals.shape) != 2:
        print errormsg
        print '  ' + fname +': wrong shape:',lonvals.shape," of 'lons' variable, " + \
          'must be 2D !!'
        quit(-1)
    if len(latvals.shape) != 2:
        print errormsg
        print '  ' + fname +': wrong shape:',latvals.shape," of 'lats' variable, " + \
          'must be 2D !!'
        quit(-1)
    dx = lonvals.shape[1]
    dy = lonvals.shape[0]

    if not gen.searchInlist(oLlnc.dimensions, dnx):
        print errormsg
        print '  ' + fname + ': netCDF object does not have x dimension: ', dnx,"' !!"
        quit(-1)
    if not gen.searchInlist(oLlnc.dimensions, dny):
        print errormsg
        print '  ' + fname + ': netCDF object does not have y dimension: ', dny,"' !!"
        quit(-1)
 
# Creation of dimension variables
    newvar = oLlnc.createVariable('lon', 'f8', (dny,dnx))
    basicvardef(newvar, 'longitude', 'Longitude','degrees_East')
    newvar[:] = lonvals
    newvar.setncattr('axis', 'X')
    newvar.setncattr('_CoordinateAxisType', 'Lon')

    newvar = oLlnc.createVariable('lat', 'f8', (dny,dnx))
    basicvardef(newvar, 'latitude', 'Latitude','degrees_North')
    signlat = latvals[1,0] - latvals[0,0]
    newvar[:] = latvals

    newvar.setncattr('axis', 'Y')
    newvar.setncattr('_CoordinateAxisType', 'Lat')   
    
    return

def subbasin(values, ncfile):
    """ Function to retrieve the subbasin (all the sub-flows untila a given lon,lat)
      values= [subname],[sublon],[sublat]
        subname: name for the subbasin ('!' for spaces)
        sub[lon/lat]: longitude and latitude of the subbasin point 
        searchdirection: searching direction river-up ('left': clockwise, 'right': anti-clockwise)
      ncfile= name of the file to use (commontly ORCHIDEE's 'routing.nc')
    """
    fname = 'subbasin'
    
    if values == 'h':
        print fname + '_____________________________________________________________'
        print subbasin.__doc__
        quit()

    arguments = '[subnmame],[sublon],[sublat],[searchdirection]'
    gen.check_arguments(fname, values, arguments, ',')

    ofile = 'subbasin.nc'

    onc = NetCDFFile(ncfile, 'r')

    subname = values.split(',')[0].replace('!',' ')
    sublon = np.float(values.split(',')[1])
    sublat = np.float(values.split(',')[2])
    searchdirection = values.split(',')[3]

    Lncfile = len(ncfile)

    if ncfile[Lncfile-10:Lncfile] == 'routing.nc':
        lonname = 'nav_lon'
        latname = 'nav_lat'
        tripname = 'trip'
        Soutflows = ['1: N', '2: NE', '3: E', '4: SE', '5: S', '6: SW', '7: W',      \
          '8: NW', '97: sub-basin', '98: small to sea', '99: large to sea']
        filen = 'routing.nc'
    else:
        print errormsg
        print '  ' + fname + ": file '" + ncfile + "' not ready!!"
        quit(-1)
    Ndiroutflow = len(Soutflows)

    olons = onc.variables[lonname]
    olats = onc.variables[latname]
    ooutflows = onc.variables[tripname]
# Flipping the routing file
    lons = olons[:]
    lats = olats[:]
    outflows = np.array(ooutflows[:], dtype=int)

    difflonlat = np.sqrt((lons - sublon)**2 + (lats - sublat)**2)
    mindifflonlat = np.min(difflonlat)
    if mindifflonlat != 0.:
        print errormsg
        print '  ' + fname + ': wrong initial lon,lat of the basin!!'
        print '    for lon,lat:', sublon,',',sublat,'there is not grid point ' +     \
          "coincidence in file '" + ncfile + "'"
        quit(-1)

    isub = gen.index_mat(difflonlat, mindifflonlat)
    print '    ' + fname + "initial point of subbasin '" + subname + "' in the " +   \
      'matrix:', isub

    masksubbasin, subflows, subflowspt = gen.subbasin_point(outflows, isub,          \
      searchdirection)

    if len(subflows.keys()) == 1:
        print errormsg
        print '  ' + fname + ": Only 1 point for subbasin '" + subname +             \
          "' at lon,lat:", sublon,',',sublat
        print ' values around (3x3 centered at: ', isub, ')'
        lon3x3 = gen.vals_around(lons, isub)
        lat3x3 = gen.vals_around(lats, isub)
        out3x3 = gen.vals_around(outflows, isub)
        print ' lon lat out _______'
        for i in range(3):
            print lon3x3[i,:], lat3x3[i,:], out3x3[i,:]
        print 'out equivalencies:', Soutflows
        quit(-1)

    onewnc = NetCDFFile(ofile, 'w')

    dx = outflows.shape[1]
    dy = outflows.shape[0]

# Number of sub-flows within the sub-basin
    Nsubflows = len(subflows.keys())

# Maximum number of grid points of a sub-flow
    Nmaxgridsubflow = -1
    Ngridpoint = 0
    for subflow in subflows.keys():
        Ngridsubflow = len(subflows[subflow])
        Ngridpoint = Ngridpoint + Ngridsubflow
        if Ngridsubflow > Nmaxgridsubflow: Nmaxgridsubflow = Ngridsubflow

# Creation of dimensions
    Lstr = 50
    newdim = onewnc.createDimension('x', dx)
    newdim = onewnc.createDimension('y', dy)
    newdim = onewnc.createDimension('Nsubflow', Nsubflows)
    newdim = onewnc.createDimension('Lstring', Lstr)
    newdim = onewnc.createDimension('Ngridsubflow', Nmaxgridsubflow)
    newdim = onewnc.createDimension('outflow', Ndiroutflow)
    
    if filen == 'routing.nc':
        lonlatvarsFile(lons, lats[::-1,:], 'x', 'y', onewnc)
    else:
        lonlatvarsFile(lons, lats, 'x', 'y', onewnc)

# Creation of variables
    newvar = onewnc.createVariable('subbasin', 'c', ('Lstring'))
    for ic in range(len(subname)):
        newvar[ic] = subname[ic:ic+1]
    newattr = set_attributek(newvar,'Ngridpoint',Ngridpoint,'I')
    newattr = set_attributek(newvar,'Nsubflow',Nsubflows,'I')
    newattr = set_attributek(newvar,'lon',sublon,'R')
    newattr = set_attributek(newvar,'lat',sublat,'R')
    newattr = set_attributek(newvar,'icoord',isub[1],'I')
    newattr = set_attributek(newvar,'jcoord',isub[0],'I')

    onewnc.sync()

    newvar = onewnc.createVariable('subbasinmask','i',('y','x'))
    vardef = basicvardef(newvar, 'subbasinmask', 'mask of the subbasin','1')
    if filen == 'routing.nc':
        newvar[:] = masksubbasin[::-1,:]
    else:
        newvar[:] = masksubbasin
    newattr = set_attributek(newvar,'coordinates','lon lat','S')

    onewnc.sync()

    nsubflows = subflows.keys()
    nsubflows.sort
    newvar = onewnc.createVariable('subflow', 'c', ('Nsubflow', 'Lstring'))
    vardef = basicvardef(newvar, 'subflow', 'reference of the sub-flow','-')
    newvals = writing_str_nc(newvar, nsubflows, Lstr)
    newattr = set_attributek(newvar,'searching_direction',searchdirection,'S')
    onewnc.sync()

# sub-flow grid point data
    newvar = onewnc.createVariable('Nsubflow', 'i', ('Nsubflow'))
    basicvardef(newvar, 'Nsubflow', 'Number of grid points of the sub-flow', '-')
    newvarlon = onewnc.createVariable('lonsubflow', 'f4', ('Nsubflow','Ngridsubflow'))
    vardef = basicvardef(newvarlon, 'lonsubflow', 'Longitude of the grid point of '+ \
      'the sub-flow','degrees_East')
    newvarlat = onewnc.createVariable('latsubflow', 'f4', ('Nsubflow','Ngridsubflow'))
    vardef = basicvardef(newvarlat, 'latsubflow', 'Latitude of the grid point of ' + \
      'the sub-flow','degrees_North')
    newvartrip = onewnc.createVariable('outsubflow', 'i', ('Nsubflow','Ngridsubflow'))
    vardef = basicvardef(newvartrip, 'outsubflow', 'out-flow of the grid point of '+ \
      'the sub-flow','outflow')

    isub = 0
    for subf in nsubflows:
        grids = subflows[subf]
        Ngrid = len(grids)
        newvar[isub] = Ngrid
#        print '  ' + fname + ' Lluis; isub:', isub,'subf:',subf,'grids:',grids,'Ngrid',Ngrid
        for igrid in range(Ngrid):
            jigrid = subflowspt[grids[igrid]]
            lonv = lons[jigrid[0],jigrid[1]]
            latv = lats[jigrid[0],jigrid[1]]
            tripv = outflows[jigrid[0],jigrid[1]]
#            print '    jigrid:', jigrid,' lon:', lonv,'lat:',latv
            newvarlon[isub,igrid] = lonv
            newvarlat[isub,igrid] = latv
            newvartrip[isub,igrid] = tripv

        isub = isub + 1
    onewnc.sync()

    newvar = onewnc.createVariable('outflow', 'c', ('outflow', 'Lstring'))
    vardef = basicvardef(newvar, 'outflow', 'out-flow direction','1')
    newvals = writing_str_nc(newvar, Soutflows, Lstr)
    onewnc.sync()
    
# Global attributes
    onewnc.setncattr('script',  fname)
    onewnc.setncattr('version',  '1.0')
    onewnc.setncattr('author',  'L. Fita')
    newattr = set_attributek(onewnc, 'institution', unicode('Laboratoire de M' +     \
      unichr(233) + 't' + unichr(233) + 'orologie Dynamique'), 'U')
    onewnc.setncattr('university',  'Pierre et Marie Curie')
    onewnc.setncattr('country',  'France')
    newattr = set_attributek(onewnc, 'file',  ncfile ,'S')

    for attrs in onc.ncattrs():
        attrv = onc.getncattr(attrs)
        attr = set_attribute(onewnc, attrs, attrv)

    onc.close()
    onewnc.sync()
    onewnc.close()

    print fname + ": succesfull written of '" + ofile + "' !!"

    return

def var_model(varname, onc):
    """ Function to provide the way to compute a CF-variable providing its name
      varname= CF-compilant variable name
      onc= netCDF file object from which the variable should be retrieved
      NOTE: on output 'computevardiag', first value of the list is the 'diagnostics.py' name
    >>> onc = NetCDFFile('/home/lluis/PY/wrfout_d01_2001-11-11_00:00:00', 'r')
    >>> mod, diag = var_model('tas', onc)
    ['T2'], None
    >>> mod, diag = var_model('hurs', onc)
    None, [['WRFrhs', 'PSFC', 'T2', 'Q2']]
    """
    fname = 'var_model'

    ncvars = onc.variables

# Getting non-chceking variables
    folder = os.path.dirname(os.path.realpath(__file__))
    infile = folder + '/diagnostics.inf'
    if not os.path.isfile(infile):
        print errormsg
        print '  ' + fname + ": File '" + infile + "' does not exist !!"
        quit(-1)

    ncf = open(infile, 'r')

    for line in ncf:
        if line[0:9] == '# NOcheck':
            NOchk = line.split('=')[1].replace(' ','').replace('\n','').split(':')
            ncf.close()
            break

# Variables from which CF variable might be computed
    modelvars = gen.CFvar_MODvar(varname)
    diagvars = gen.CFvar_DIAGvar(varname)

#    print '  ' + fname + ': Lluis; diagvars:', diagvars
    computevarmod = []
    if modelvars is not None:
        for var in modelvars:
            if gen.searchInlist(ncvars,var): computevarmod.append(var)
    if len(computevarmod) < 1: computevarmod = None

    computevardiag = []
    if diagvars is not None:
        for diagn in diagvars.keys():
            combovar = diagvars[diagn]
            alltrue = False
            if len(combovar) > 1:
                for cvar in combovar: 
                    if gen.searchInlist(NOchk,cvar):
                        alltrue = True
                    else:
                        if gen.searchInlist(ncvars,cvar): alltrue = True
            else:
#                print '  ' + fname + ': Lluis; combovar:', combovar[0],' is:',gen.searchInlist(ncvars,combovar[0])
                if gen.searchInlist(ncvars,combovar[0]): alltrue = True

            if alltrue: computevardiag.append([diagn] + combovar)
#    print '  ' + fname + ': Lluis; alltrue:', alltrue, 'computevardiag:', computevardiag

    if len(computevardiag) < 1: computevardiag = None

    return computevarmod, computevardiag
#onc = NetCDFFile('/home/lluis/PY/wrfout_d01_2001-11-11_00:00:00', 'r')
#mod, diag = var_model('tas', onc)
#print mod
#print diag
#mod, diag = var_model('hurs', onc)
#print mod
#print diag

def computevar_model(values, ncfile):
    """ Function to provide the way to compute a CF-variable providing its name
      varname= CF-compilant variable name
      ncfile= netCDF file from which the variable should be retrieved
    """
    fname = 'computevar_model'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print computevar_model.__doc__
        quit()

    varname = values
    ncobj = NetCDFFile(ncfile, 'r')
 
    varmod, vardiag =  var_model(varname, ncobj)
    print '  ' + fname + ": CF variable '" + varname + "' can be computed ______"
    print '    model:', varmod
    print '    diagnostics:', vardiag

    if varmod is not None: 
        varmodsingle = gen.numVector_String(varmod,':')
    else:
        varmodsingle = 'None'
    if vardiag is not None: 
        for diag in vardiag:
            if diag == vardiag[0]:
                vardiagsingle = gen.numVector_String(diag,':')
            else:
                vardiagsingle = vardiagsingle + '#' + gen.numVector_String(diag,':')
    else:
        vardiagsingle = 'None'

    print '    |singleline@model=' + varmodsingle + '@diag=' + vardiagsingle
    ncobj.close() 

    return varmod, vardiag

#computevar_model('pr', '/home/lluis/PY/wrfout_d01_2001-11-11_00:00:00')
#quit()

class ModelChar(object):
    """ Class object to determine major characterisitcs of a given model output
      model= name of the model
      ncfile= name of the file to use to check
    """
    def __init__(self,model,ncfile):
        fname = 'ModelChar'
        models = ['WRF', 'LMDZ', 'WRF_LMDZ']

        if model == 'WRF' or model == 'WRF_LMDZ':
            if model == 'WRF':
                self.model = 'Weather Research and Forecasting'
            else:
                self.model= 'LMDZ physics coupled to Weather Research and Forecasting'

            self.dimxn = 'west_east'
            self.dimyn = 'south_north'
            self.dimzn = 'bottom_top'
            self.dimtn = 'Time'
            self.dimsn = 'soil_layers_stag'
            self.vardxn = 'XLONG'
            self.vardyn = 'XLAT'
            self.vardzn = 'ZNU'
            self.vardtn = 'Times'
            self.vardsn = 'ZS'
            if ncfile is not None and ncfile[0:2] == 'geo':
                self.vardxn = 'XLONG_M'
                self.vardyn = 'XLAT_M'

            if ncfile is not None:
                attrv = get_attribute('TITLE', ncfile, 'global')
                self.version = attrv.split(' ')[4]

        elif model == 'LMD':
            self.model = 'LMDZ'
            self.dimxn = 'lon'
            self.dimyn = 'lat'
            self.dimzn = 'presnivs'
            self.dimtn = 'time_counter'
            self.dimsn = None
            self.vardxn = 'lon'
            self.vardyn = 'lat'
            self.vardzn = 'pres'
            self.vardtn = 'time_counter'
            self.vardsn = None

            if ncfile is not None:
                self.version = None
        self.dimensions = [self.dimxn, self.dimyn, self.dimzn, self.dimtn, self.dimsn]
        self.vardimensions = [self.vardxn, self.vardyn, self.vardzn, self.vardtn, self.vardsn]

def model_characteristics(values, ncfile):
    """ Functino to provide major characterisitcs of a given model output
      values= [model]
        model: name of the model
      ncfile= name of the file to use to check
    """
    fname = 'model_characteristics'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print model_characteristics.__doc__
        quit()

    model = values

    if ncfile == 'None': ncfile = None

    modchar = ModelChar(model,ncfile)
    gen.printing_class(modchar)
    gen.singleline_printing_class(modchar)

    return

def pinterp(values, ncfile, variables):
    """ Function to vertically interpolate using subroutines from the p_interp.F90 NCAR program
      Using fortran codes: module_generic.F90
      foudre: f2py -m module_ForInterpolate --f90exec=/usr/bin/gfortran-4.7 -c module_generic.F90 module_ForInterpolate.F90  >& run_f2py.log
      ciclad: f2py --f90flags="-fPIC" -L/opt/canopy-1.3.0/Canopy_64bit/System/lib/ -L/usr/lib64/ -L/opt/canopy-1.3.0/Canopy_64bit/System/lib/ -m module_ForInterpolate -c module_generic.F90 module_ForInterpolate.F90 
      values= [interplevs],[linloginterp],[extrap]
        [interplevs]: ':' separated list of pressure values to interpolate [Pa] (decreassing in Pa)
        [linloginterp]: kind of linear interpolation
          1: linear interp in pressure
          2: linear interp in ln(pressure)
        [extrap]: whether to set to missing value below/above model ground and top (0), or extrapolate (1)
      ncfile= WRF file to use
      variables = ',' separated list of names of variables to interpolate ('all', fo all 4D-atmospheric variables)
        'WRFght': for WRF geopotential height
        'WRFrh': for WRF relative humidity
        'WRFt': for WRF temperature
    """
    import module_ForInterpolate as fin
    fname = 'pinterp'

    if values == 'h':
        print fname + '_____________________________________________________________'
        print pinterp.__doc__
        quit()

    arguments = '[interplevs],[linloginterp],[extrap]'
    gen.check_arguments(fname, values, arguments, ',')

    interplevs = np.array(values.split(',')[0].split(':'), dtype=np.float64)
    linloginterp = np.int32(values.split(',')[1])
    extrap = np.int32(values.split(',')[2])

    ofile = 'pinterp.nc'

    onc = NetCDFFile(ncfile, 'r')

    # Variables to interpolate
    WRFdims = ['Time', 'bottom_top', 'south_north', 'west_east']
    newWRFdims = ['Time', 'pres', 'south_north', 'west_east']
    notCHK = ['WRFght', 'WRFt', 'WRFrh']
    CFdims = ['time', 'pres', 'lat', 'lon']

    varns = gen.str_list(variables, ',')
    if variables == 'all':
        varns = []
        for vn in onc.variables:
            ovn = onc.variables[vn]
            coincdims = set(WRFdims) & set(ovn.dimensions)
           
            if len(WRFdims) == len(ovn.dimensions) and len(coincdims) == len(WRFdims):
                varns.append(vn)
        varns = varns + notCHK
        
    for vn in varns:
        if not gen.searchInlist(onc.variables, vn) and                               \
          not gen.searchInlist(notCHK, vn):
            print errormsg
            print '  ' + fname + "': WRF file '" + ncfile +                          \
              "' does not have variable '" + vn + "' !!"
            quit(-1)

    # looking for WRF required variables
    WRFvarrequired = ['P', 'PB', 'PSFC', 'PH', 'PHB', 'HGT', 'T', 'QVAPOR', 'XLONG', \
      'XLAT', 'Times']
    for var in WRFvarrequired:
        if not gen.searchInlist(onc.variables, var):
            print errormsg
            print '  ' + fname + ": file '" + ncfile + "' does not have variable '" +\
              var + "' !!"
            quit(-1)

# Computing necessary variables
    # pressure
    ovar1 = onc.variables['P']
    ovar2 = onc.variables['PB']

    pres = (ovar1[:] + ovar2[:]).astype('float64')

    dimx = pres.shape[3]
    dimy = pres.shape[2]
    dimz = pres.shape[1]
    dimt = pres.shape[0]

    # sfc pressure
    ovar1 = onc.variables['PSFC']
    psfc = ovar1[:].astype('float64')

    # geopotential height
    ovar1 = onc.variables['PH']
    ovar2 = onc.variables['PHB']
    geop0 = ovar1[:] + ovar2[:]
    unstg = list(geop0.shape)
    unstg[1] = unstg[1] - 1
    geop = np.zeros(tuple(unstg), dtype=np.float)
    geop = 0.5*(geop0[:,1:dimz,:,:] + geop0[:,0:dimz-1,:,:]).astype('float64')

    # terrain height
    ovar1 = onc.variables['HGT']
    hgt = ovar1[0,:,:].astype('float64')

    # water vapour micing ratio
    ovar1 = onc.variables['QVAPOR']
    qv = ovar1[:].astype('float64')

    # temperature
    Rd = 287.04
    Cp = 7.*Rd/2.
    RCP = Rd/Cp
    p0 = 100000.
    ovar1 = onc.variables['T']
    temp = ((ovar1[:]+300.)*(pres[:]/p0)**RCP).astype('float64')

    WRFdimvs = {'Time':dimt, 'bottom_top':dimz, 'south_north':dimy, 'west_east': dimx}

    onewnc = NetCDFFile(ofile, 'w')
# Creation of dimensions
    newdim = onewnc.createDimension('west_east', dimx)
    newdim = onewnc.createDimension('south_north', dimy)
    newdim = onewnc.createDimension('pres', len(interplevs))
    newdim = onewnc.createDimension('Time', None)

# Creation of variable dimensions
    WRFvardims = ['XLONG', 'XLAT', 'Times']
    for var in WRFvardims:
        ovar = onc.variables[var]
        varinf = variable_inf(ovar)
        newvard = []
        for vd in varinf.dimns:
            if not gen.searchInlist(onewnc.dimensions, vd) and                       \
              not gen.searchInlist(CFdims, vd):
                newdim = onewnc.createDimension(vd, len(onc.dimensions[vd]))
            if gen.searchInlist(CFdims,vd):
                icfdim = CFdims.index(vd)
                newvard.append(WRFdims[icfdim])
            else:
                newvard.append(vd)

        newvar = onewnc.createVariable(var, nctype(varinf.dtype),                    \
          tuple(newvard))
        newvar[:] = ovar[:]
        for attrn in ovar.ncattrs():
            attrv = ovar.getncattr(attrn)
            attr = set_attribute(newvar, attrn, attrv)    

    # Creation of pressure variable dimension
    newvar = onewnc.createVariable('pres', 'f8', ('pres'))
    newvar[:] = interplevs * 100.
    basicvardef(newvar, 'pressure', 'Pressure', 'Pa')
    attr = set_attribute(newvar, 'positive', 'down')
    attr = set_attribute(newvar, 'axis', 'Z')

    print '  ' + fname + ' interpolating at pressure levels _______' 
    print '     ', interplevs
    for vn in varns:
        print "      '" + vn + "' ..."
        newvarattr = {}
        varin = None

        if gen.searchInlist(notCHK, vn):
            if vn == 'WRFght': 
                varin = geop
                isgeopt = True
                varattrs = gen.variables_values('WRFght')
                CFvn = varattrs[0]
                newvarattr['standard_name'] = varattrs[1]
                newvarattr['long_name'] = varattrs[4].replace('|',' ')
                newvarattr['units'] = varattrs[5]
            elif vn == 'WRFrh': 
                # relative humidity
                ovar1 = 10.*0.6112*np.exp(17.67*(temp-273.16)/(temp-29.65))
                ovar2 = 0.622*ovar1/(0.01*pres-(1.-0.622)*ovar1)
                varin = 100.*qv/ovar2
                isgeop = False
                varattrs = gen.variables_values('WRFrh')
                CFvn = varattrs[0]
                newvarattr['standard_name'] = varattrs[1]
                newvarattr['long_name'] = varattrs[4].replace('|',' ')
                newvarattr['units'] = varattrs[5]
            elif vn == 'WRFt':
                varin = temp
                isgeop = False
                varattrs = gen.variables_values('WRFt')
                CFvn = varattrs[0]
                newvarattr['standard_name'] = varattrs[1]
                newvarattr['long_name'] = varattrs[4].replace('|',' ')
                newvarattr['units'] = varattrs[5]
        elif not gen.searchInlist(WRFvarrequired, vn) or vn == 'QVAPOR':
            ovarin = onc.variables[vn]
            varinf = variable_inf(ovarin)
            varin = ovarin[:]
            # de-staggering
            if gen.searchInlist(ovarin.dimensions, 'west_east'):
                varint = gen.stagger_unstagger(varin,list(ovarin.dimensions),WRFdimvs)
            else:
                CFdimvs = {'time': dimt, 'bottom_top': dimz, 'lat': dimy, 'lon': dimx}
                varint = gen.stagger_unstagger(varin,list(ovarin.dimensions),CFdimvs)
            isgeop = False
            if vn == 'z': isgeop = True
            varattrs = gen.variables_values(vn)
            CFvn = varattrs[0]
            newvarattr['standard_name'] = varattrs[1]
            newvarattr['long_name'] = varattrs[4].replace('|',' ')
            newvarattr['units'] = varattrs[5]
            for attrn in ovarin.ncattrs():
                attrv = ovarin.getncattr(attrn)
                newvarattr[attrn] = attrv

        if varin is not None:
            varint = varin.transpose()
            prest = pres.transpose()
            psfct = psfc.transpose()
            hgtt = hgt.transpose()
            tempt = temp.transpose()
            qvt = qv.transpose()
            varinterp = fin.module_forinterpolate.interp( data_in=varint,            \
              pres_field=prest, interp_levels=interplevs, psfc=psfct,                \
              ter=hgtt, tk=tempt, qv=qvt, linlog=linloginterp,                       \
              extrapolate=extrap, geopt=isgeop, missing=gen.fillValueF)

            newvar = onewnc.createVariable(CFvn, 'f4', tuple(newWRFdims),            \
              fill_value=gen.fillValueF)
            newvar[:] = varinterp.transpose()

            for attrn in newvarattr.keys():
                attr = set_attribute(newvar, attrn, newvarattr[attrn])
            onewnc.sync()

    # Global attributes

    onewnc.setncattr('author', 'L. Fita')
    newattr = set_attributek(onewnc, 'institution', unicode('Laboratoire de M' +     \
      unichr(233) + 't' + unichr(233) + 'orologie Dynamique'), 'U')
    onewnc.setncattr('university', 'Pierre Marie Curie - Jussieu')
    onewnc.setncattr('center', 'Centre National de Recherches Scientifiques')
    onewnc.setncattr('city', 'Paris')
    onewnc.setncattr('country', 'France')
    onewnc.setncattr('script', 'nc_var_tools.py')
    onewnc.setncattr('function', 'pinterp')
    onewnc.setncattr('version', '1.0')
    onewnc.setncattr('oringal', 'Interpolation using p_interp.F90 subroutines')
    newattr = set_attributek(onewnc, 'original_subroutines_author', unicode('Cindy '+\
      'Bruy' + unichr(232) + 're'), 'U')
    onewnc.setncattr('original_subroutines_date', 'November 2007')

    for attrn in onc.ncattrs():
        attrv = onc.getncattr(attrn)
        attr = set_attribute(onewnc, attrn, attrv)    

    onewnc.sync()
    onewnc.close()

    print fname + ": successfull written of '" + ofile + "' !!"

    return

#quit()