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'''
Created on 22 Oct 2019


# Copyright 2005-2018 ECMWF.
# This software is licensed under the terms of the Apache Licence Version 2.0
# which can be obtained at http://www.apache.org/licenses/LICENSE-2.0.
# In applying this licence, ECMWF does not waive the privileges and immunities
# granted to it by virtue of its status as an intergovernmental organisation
# nor does it submit to any jurisdiction
   
This is a test program to encode Wigos Synop
requires
   
1) ecCodes version 2.814.1 or above (available at https://confluence.ecmwf.int/display/ECC/Releases)
2) python2.7python3.6.8-01
   
To run the program
   
   ./wigosTempaddWigosProg.py  -i synop_multi_subset.bufr -o out_synop_multisubset.bufr  -w WIGOS_TEMP_IDENT.csv
      
Uses BUFR version 4 template  and adds the WIGOS Identifier 301150
REQUIRES TablesVersionNumber above 28
   
Author : Roberto Ribas Garcia ECMWF 1228/0910/2019

'''
from eccodes import *
import argparse 
import json 
import re 
import pandas as pd 
import numpy as np 
import logging 
import requests 
import os 

def read_cmd_line():
    p=argparse.ArgumentParser()
    p.add_argument("-i","--input",help="input bufr file")
    p.add_argument("-o","--output",help="output bufr file with wigos")
    p.add_argument("-m","--mode",choices=["web","json"],help=" wigos source [ json file or web ]")
    p.add_argument("-l","--logfile",help="log file ")
    args=p.parse_args()
    return args 
    
def read_oscar_json(jsonFile):
    with open(jsonFile,"r") as f:
Modifications
    performance improvement ( uses skipExtraKeyAttributes)  and codes_clone   04/11/2019
    changes for SYNOP and TEMP messages                                       05/11/2019
    fixed codes_clone issue                                        jtext=json.load(f)
    return jtext 

def read_oscar_web(oscarURL="https://oscar.wmo.int/surface/rest/api/search/station?"):
    r=requests.get(oscarURL)
    jtext=json.loads(r.text)
    return jtext 

def parse_json_into_dataframe(jtext):
    '''
    parses the JSON from the file wigosJsonFile
    filters the stations by wigosStationIdentifiers key in the dictionaries
    '''
    
    wigosStations=[]
    nowigosStations=[]
    for d in jtext:
        if "wigosStationIdentifiers" in d.keys():
            wigosStations.append(d)
        else:
            nowigosStations.append(d)
    
    '''
    uses only the wigos 0-20XXX-0-YYYYY (surface)
    '''
    p=re.compile("0-20\d{3}-0-\d{5}")

    fwigosStations=[]
    for d in wigosStations:
        wigosInfo=d["wigosStationIdentifiers"]
        for e in wigosInfo:
            if e["primary"]==True:
                wigosId=e["wigosStationIdentifier"]
            05/11/2019

'''
from eccodes import *
import argparse 
import json 
import re 
import pandas as pd 
import numpy as np 
import logging 
import requests 
import os 

def read_cmd_line():
    p=argparse.ArgumentParser()
    p.add_argument("-i","--input",help="input bufr file")
    p.add_argument("-o","--output",help="output bufr file with wigos")
    p.add_argument("-m","--mode",choices=["web","json"],help=" wigos source [ json file or web ]")
    p.add_argument("-l","--logfile",help="log file ")
    args=p.parse_args()
    return args 
    
def read_oscar_json(jsonFile):
    with open(jsonFile,"r") as f:
        jtext=json.load(f)
    return jtext 

def read_oscar_web(oscarURL="https://oscar.wmo.int/surface/rest/api/search/station?"):
    r=requests.get(oscarURL)
    jtext=json.loads(r.text)
    return jtext 

def parse_json_into_dataframe(jtext):
    '''
    parses the JSON from the file wigosJsonFile
    filters the stations by wigosStationIdentifiers key in the dictionaries
    '''
    
    wigosStations=[]
    nowigosStations=[]
    for d in jtext:
        if if p.match(wigosId"wigosStationIdentifiers" in d.keys():
                    wigosParts=wigosId.split("-"wigosStations.append(d)
        else:
            d["wigosIdentifierSeries"]=wigosParts[0]nowigosStations.append(d)
    
    '''
    uses only the wigos     d["wigosIssuerOfIdentifier"]=wigosParts[1]0-20XXX-0-YYYYY (surface)
    '''
    p=re.compile("0-20\d{3}-0-\d{5}")

    fwigosStations=[]
    for d in wigosStations:
        wigosInfo=d["wigosIssueNumberwigosStationIdentifiers"]=wigosParts[2]
        for e in wigosInfo:
            if de["wigosLocalIdentifierCharacterprimary"]=wigosParts[3]=True:
                    dwigosId=e["oldIDwigosStationIdentifier"]=wigosParts[3][-5:]
                if    fwigosStations.append(d)p.match(wigosId):
                    wigosParts=wigosId.split("-")
      df=pd.DataFrame(fwigosStations)
      df=df[["longitude","latitude","name","wigosStationIdentifiers","wigosIdentifierSeries","wigosIssuerOfIdentifier","wigosIssueNumber",
           "wigosLocalIdentifierCharacter","oldID"]]  d["wigosIdentifierSeries"]=wigosParts[0]
    return df

def get_ident(bid):
    '''
    gets the ident of the message by combining blockNumber and stationNumber keys from the input BUFR file
 d["wigosIssuerOfIdentifier"]=wigosParts[1]
              the ident may be single valued or multivalued ( only single valued are considered further)
 d["wigosIssueNumber"]=wigosParts[2]
            '''
    ident=None 
    if ( codes_is_defined(bid, "blockNumber") and codes_is_defined(bid,"stationNumber") ):
d["wigosLocalIdentifierCharacter"]=wigosParts[3]
                    blockNumber=codes_get_array(bid,"blockNumber")d["oldID"]=wigosParts[3][-5:]
        stationNumber=codes_get_array(bid,"stationNumber"            fwigosStations.append(d)
        if len(blockNumber)==1 and len(stationNumber)==1:
            
    ident="{0:02d}{1:03d}".format(int(blockNumber),int(stationNumber))df=pd.DataFrame(fwigosStations)
        elif len(blockNumber)==1 and len(stationNumber)!=1:
df=df[["longitude","latitude","name","wigosStationIdentifiers","wigosIdentifierSeries","wigosIssuerOfIdentifier","wigosIssueNumber",
           "wigosLocalIdentifierCharacter","oldID"]]  
     blockNumber=np.repeat(blockNumber,len(stationNumber))return df

def get_ident(bid):
    '''
    gets the ident  ident=[str("{0:02d}{1:03d}".format(b,s)) for b,s in zip(blockNumber,stationNumber) 
       of the message by combining blockNumber and stationNumber keys from the input BUFR file
    the ident may be single valued or multivalued if b!=CODES_MISSING_LONG and s!=CODES_MISSING_LONG] 
  ( only single valued are considered further)
    
  elif len(blockNumber)!=1 and len(stationNumber)!=1: '''
    ident=None 
    if   ident=[str("{0:02d}{1:03d}".format(b,s)) for b,s in zip(blockNumber,stationNumber) ( codes_is_defined(bid, "blockNumber") and codes_is_defined(bid,"stationNumber") ):
        blockNumber=codes_get_array(bid,"blockNumber")
           if b!=CODES_MISSING_LONG and s!=CODES_MISSING_LONG]stationNumber=codes_get_array(bid,"stationNumber")
        if len(blockNumber)==1   
    return ident 

def add_wigos_info(ident,bid,wdf,obid)and len(stationNumber)==1:
    '''
    add the wigos information to the message ident pointed by bid
    the wdf is the whole wigos dataframe and obid is the output bid
    '''
    
    
    if codes_is_defined(bid, "shortDelayedDescriptorReplicationFactor"):
 ident="{0:02d}{1:03d}".format(int(blockNumber),int(stationNumber))
        elif len(blockNumber)==1 and len(stationNumber)!=1:
            blockNumber=np.repeat(blockNumber,len(stationNumber))
            ident=[str("{0:02d}{1:03d}".format(b,s)) for b,s in zip(blockNumber,stationNumber) 
          shortDelayed=codes_get_array(bid,"shortDelayedDescriptorReplicationFactor")
    else:
     if b!=CODES_MISSING_LONG and shortDelayed=None 

s!=CODES_MISSING_LONG] 
        if codes_is_defined(bid, "delayedDescriptorReplicationFactor"):
elif len(blockNumber)!=1 and len(stationNumber)!=1:
          delayedDesc=codes_get_array(bid,"delayedDescriptorReplicationFactor")
    else:  ident=[str("{0:02d}{1:03d}".format(b,s)) for b,s in zip(blockNumber,stationNumber) 
        delayedDesc=None 
       
   if b!=CODES_MISSING_LONG   and s!=CODES_MISSING_LONG]
    nsubsets=codes_get(bid,"numberOfSubsets")
    compressed=codes_get(bid,"compressedData")'''
    
    masterTablesVersionNumber=codes_get(bid,"masterTablesVersionNumber")
    if masterTablesVersionNumber<28:
        masterTablesVersionNumber=28here only the first element of the list is returned to the main program
        
this avoids lists  unexpandedDescriptors=codes_get_array(bid,"unexpandedDescriptors")
    outUD=list(unexpandedDescriptors)
    outUD.insert(0,301150)being used in the dataframe query and breaking the logic
        
    '''
    only treat the uncompressed messages with 1 subset if isinstance(ident,list):
    for future add treatment of compressed messages with more than 1 subset
    ''' ident=ident[0]
    return ident 


    

def add_wigos_info(ident,bid,odf,obid):
   if compressed==0 and nsubsets==1:
        if shortDelayed is not None: '''
    add the wigos information to the message ident pointed by bid
    the odf contains the WIGOS information for  codes_set_array(obid,"inputShortDelayedDescriptorReplicationFactor",shortDelayed)ident 
    obid is the output ifhandle
 delayedDesc is not None:'''
   
    
    if codes_setis_arraydefined(obidbid, "inputDelayedDescriptorReplicationFactorshortDelayedDescriptorReplicationFactor",delayedDesc):
        shortDelayed=codes_setget_array(obidbid,"masterTablesVersionNumbershortDelayedDescriptorReplicationFactor",masterTablesVersionNumber)
    else:
      codes_set(obid,"numberOfSubsets",nsubsets)  shortDelayed=None 

    if codes_is_defined(bid, "delayedDescriptorReplicationFactor"):
        odf=wdf.query("oldID=='{0}'".format(ident))delayedDesc=codes_get_array(bid,"delayedDescriptorReplicationFactor")
    else:
    if not odf.empty:    delayedDesc=None 
        
    if codes_setis_arraydefined(obidbid, "unexpandedDescriptorsextendedDelayedDescriptorReplicationFactor",outUD):
            wis=odf["wigosIdentifierSeries"].values extDelayedDesc=codes_get_array(bid,"extendedDelayedDescriptorReplicationFactor")
    else:
        if len(wis)!=1:extDelayedDesc=None 

        
    nsubsets=codes_get(bid,"numberOfSubsets")
    wis=wis[0]compressed=codes_get(bid,"compressedData")
    
        masterTablesVersionNumber=codes_setget(obidbid,"wigosIdentifierSeriesmasterTablesVersionNumber",int(wis))
    if masterTablesVersionNumber<28:
        wid=odf["wigosIssuerOfIdentifier"].values masterTablesVersionNumber=28
        
    if len(wid)!=1:unexpandedDescriptors=codes_get_array(bid,"unexpandedDescriptors")
     outUD=list(unexpandedDescriptors)
           wid=wid[0]outUD.insert(0,301150)
        
    codes_set(obid,"wigosIssuerOfIdentifier",int(wid))'''
    only treat the uncompressed messages with 1  win=odf["wigosIssueNumber"].values subset 
    for future add treatment of compressed messages with if len(win)!=1:more than 1 subset
    '''
    
    if compressed==0 and  win=win[0]nsubsets==1:
        '''
    codes_set(obid,"wigosIssueNumber",int(win))    IMPORTANT, takes into account delayed replications ( all 
possible cases) to accommodate
         wlid=odf["wigosLocalIdentifierCharacter"].values 
  SYNOP + TEMP messages 
          wlid="{0:5}".format(wlid[0])'''
        if shortDelayed is  logging.info(" wlid here {0}".format(wlid))not None:
            codes_set_array(obid,"wigosLocalIdentifierCharacter",str(wlid))inputShortDelayedDescriptorReplicationFactor",shortDelayed)
        if delayedDesc is not None:
            codes_bufrset_copy_data(bid,obidarray(obid,"inputDelayedDescriptorReplicationFactor",delayedDesc)
        if extDelayedDesc is not elseNone:
            logging.info(" wigos {0} is empty for ident {1}".format(ident,odf["wigosLocalIdentifierCharacter"].values))
codes_set_array(obid,"inputExtendedDelayedDescriptorReplicationFactor",extDelayedDesc)
            else:

        logging.info(" skipping compressed  message id {0} with {1} subsets ".format(ident,nsubsets))
    
codes_set(obid,"masterTablesVersionNumber",masterTablesVersionNumber)
        codes_set(obid,"numberOfSubsets",nsubsets)
       return obid
    
     

def main():
    args=read_cmd_line()
    logfile=args.logfile 
    logging.basicConfig(filename=logfile,level=logging.INFO,filemode="w"codes_set_array(obid, "unexpandedDescriptors",outUD)
    
    infile=args.inputwis=odf["wigosIdentifierSeries"].values 
    
    outfile=args.output if len(wis)!=1:
   
    mode=args.mode 
    if mode=="web":wis=wis[0]
        jtext=read_oscar_web(codes_set(obid,"wigosIdentifierSeries",int(wis))
        cdirectory=os.getcwd()
wid=odf["wigosIssuerOfIdentifier"].values 
         oscarFile=os.path.join(cdirectory,"oscar.json")if len(wid)!=1:
        with open(oscarFile,"w") as f:    wid=wid[0]
            json.dump(jtext,fcodes_set(obid,"wigosIssuerOfIdentifier",int(wid))
    else:
        cdirectory=os.getcwd()win=odf["wigosIssueNumber"].values 
        if len(win)!=1:
        oscarFile=os.path.join(cdirectory,"oscar.json")    win=win[0]
        with open(oscarFilecodes_set(obid,"rwigosIssueNumber",int(win)) as   f:
        
    jtext=json.load(f)
    wlid=odf["wigosLocalIdentifierCharacter"].values 
      
         wlid="{0:5}".format(wlid[0])
        
logging.info(" wlid   wigosDf=parse_json_into_dataframe(jtexthere {0}".format(wlid))
    
    f=open(infilecodes_set(obid,"rbwigosLocalIdentifierCharacter",str(wlid))
      nmsg=  codes_countbufr_incopy_filedata(fbid,obid)
    fout=open(outfile,"wb")
else:
     for i in range(0,nmsg):
        obid=codes_bufr_new_from_samples("BUFR4"logging.info(" skipping compressed  message id {0} with {1} subsets ".format(ident,nsubsets))
    
     bid=codes_bufr_new_from_file(f)
    return 
    codes_set(bid,"unpack",1)
        ident=get_ident(bid)

def main():
        if ident:
            logging.info print("ecCodes \t messageversion {0} ident {1} ".format(i+1,ident(codes_get_api_version()))
    args=read_cmd_line()
    logfile=args.logfile 
    add_wigos_info(ident,bid, wigosDf, obidlogging.basicConfig(filename=logfile,level=logging.INFO,filemode="w")
    
    infile=args.input 
    codes_write(obid,fout)

    outfile=args.output 
   
    mode=args.mode else:
    if mode=="web":
       logging.info ("message {0} rejected ".format(i+1) jtext=read_oscar_web()
        cdirectory=os.getcwd()
        codes_release(obid)oscarFile=os.path.join(cdirectory,"oscar.json")
        with open(oscarFile,"w") as f:
        codes_release(bid)
    fjson.closedump(jtext,f)
    else:
        cdirectory=os.getcwd()
    print (" finished    oscarFile=os.path.join(cdirectory,"oscar.json")


if __name__ == '__main__':
        with mainopen(oscarFile,"r")

 as f:
            jtext=json.load(f)
           
       
        
    wigosDf=parse_json_into_dataframe(jtext)
    
    f=open(infile,"rb")
    nmsg=codes_count_in_file(f)
    fout=open(outfile,"wb")
    for i in range(0,nmsg):
        bid=codes_bufr_new_from_file(f)
        obid=codes_clone(bid)
        codes_set(bid, 'skipExtraKeyAttributes', 1)
        codes_set(bid,"unpack",1)
        ident=get_ident(bid)
       
        if ident:
            logging.info (" \t message {0} ident {1} ".format(i+1,ident))

            odf=wigosDf.query("oldID=='{0}'".format(ident))                
            if not odf.empty:
                add_wigos_info(ident,bid, odf,obid)
                codes_write(obid,fout)
            else:
                logging.info(" wigos {0} is empty for ident {1}".format(ident,odf["wigosLocalIdentifierCharacter"].values))
    
        else:
            logging.info ("message {0} rejected ".format(i+1))
        codes_release(obid)        
        codes_release(bid)
    f.close()    
   
    print (" finished")


if __name__ == '__main__':
    main()