Page History

'''
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) python3.6.8-01
   
To run the program
   
-i <input bufr >./addWigosProg.py  -m <mode [web|json]>  -l <logFile>  -o <output BUFR file>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 28/10/2019

Modifications
    Addedperformance copy_headerimprovement function( to keep the header keys from the input message uses skipExtraKeyAttributes)  and codes_clone   04/11/2019


'''


from eccodes import *
import argparsechanges 
importfor jsonSYNOP 
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:
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 jtext05/11/2019

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

def parseread_jsoncmd_into_dataframeline(jtext):
    '''p=argparse.ArgumentParser()
    parses the JSON from the file wigosJsonFilep.add_argument("-i","--input",help="input bufr file")
    filters the stations by wigosStationIdentifiers key in the dictionaries
    '''
    
    wigosStations=[]
    nowigosStations=[]
    for d in jtext:
        if "wigosStationIdentifiers" in d.keys():
            wigosStations.append(d)
        elsep.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:
            nowigosStations.append(djtext=json.load(f)
    
return jtext   '''

    uses only the wigos 0-20XXX-0-YYYYY (surfacedef read_oscar_web(oscarURL="https://oscar.wmo.int/surface/rest/api/search/station?"):
    r=requests.get(oscarURL)
    '''
jtext=json.loads(r.text)
     p=re.compile("0-20\d{3}-0-\d{5}")

    fwigosStations=[]
    for d in wigosStations:return jtext 

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

    fwigosStations=[]
    for d in wigosStations:
         wigosInfo=d["wigosIssuerOfIdentifierwigosStationIdentifiers"]=wigosParts[1]
        for e in wigosInfo:
         d   if e["wigosIssueNumberprimary"]=wigosParts[2]=True:
                    dwigosId=e["wigosLocalIdentifierCharacterwigosStationIdentifier"]=wigosParts[3]
                    d["oldID"]=wigosParts[3][-5:]if p.match(wigosId):
                    fwigosStationswigosParts=wigosId.appendsplit(d"-")
                    d["wigosIdentifierSeries"]=wigosParts[0]
     df=pd.DataFrame(fwigosStations)
    df=df[["longitude","latitude","name","wigosStationIdentifiers","wigosIdentifierSeries","wigosIssuerOfIdentifier","wigosIssueNumber",
           d["wigosLocalIdentifierCharacter",wigosIssuerOfIdentifier"oldID"]=wigosParts[1]
  
    return df

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

def copy_header(bid,obid):
    ''' elif len(blockNumber)==1 and len(stationNumber)!=1:
    this function copies the header keys  and avoids using the default values on the output message
    ''' 
    bhc=codes_get(bid,"bufrHeaderCentre")
    codes_set(obid,"bufrHeaderCentre",bhc)
    bhsc=codes_get(bid,"bufrHeaderSubCentre")
    codes_set(obid,"bufrHeaderSubCentre",bhsc)
    usn=codes_get(bid,"updateSequenceNumber")
    codes_set(obid,"updateSequenceNumber",usn)
    dc=codes_get(bid,"dataCategory")
    codes_set(obid,"dataCategory",dc)

    if codes_is_defined(bid, "internationalDataSubCategory"): blockNumber=np.repeat(blockNumber,len(stationNumber))
            ident=[str("{0:02d}{1:03d}".format(b,s)) for b,s in zip(blockNumber,stationNumber) 
                   if b!=CODES_MISSING_LONG and s!=CODES_MISSING_LONG] 
        idsc=codes_get(bid,"internationalDataSubCategory")
elif len(blockNumber)!=1 and len(stationNumber)!=1:
            codes_set(obid,"internationalDataSubCategory",idsc)
    dsc=codes_get(bid,"dataSubCategory")
    codes_set(obid,"dataSubCategory",dsc)
    year=codes_get(bid,"typicalYear")
    codes_set(obid,"typicalYear",year)
    month=codes_get(bid,"typicalMonth")
    codes_set(obid,"typicalMonth",month)
    day=codes_get(bid,"typicalDay")
    codes_set(obid,"typicalDay",day)
    hour=codes_get(bid,"typicalHour")
    codes_set(obid,"typicalHour",hour)
    
    tmin=codes_get(bid,"typicalMinute")
    codes_set(obid,"typicalMinute",tmin)
    sec=codes_get(bid,"typicalSecond")
    codes_set(obid,"typicalSecond",sec)
    return 


def copy_header(bid,obid):
    bhc=codes_get(bid,"bufrHeaderCentre")
    codes_set(obid,"bufrHeaderCentre",bhc)
    bhsc=codes_get(bid,"bufrHeaderSubCentre")
    codes_set(obid,"bufrHeaderSubCentre",bhsc)
    usn=codes_get(bid,"updateSequenceNumber")
    codes_set(obid,"updateSequenceNumber",usn)
    dc=codes_get(bid,"dataCategory")
    codes_set(obid,"dataCategory",dc)
   
    dsc=codes_get(bid,"dataSubCategory")
    codes_set(obid,"dataSubCategory",dsc)
    year=codes_get(bid,"typicalYear")
    codes_set(obid,"typicalYear",year)
    month=codes_get(bid,"typicalMonth")
    codes_set(obid,"typicalMonth",month)
    day=codes_get(bid,"typicalDay")
    codes_set(obid,"typicalDay",day)
    hour=codes_get(bid,"typicalHour")
    codes_set(obid,"typicalHour",hour)
    
    tmin=codes_get(bid,"typicalMinute")
    codes_set(obid,"typicalMinute",tmin)
    sec=codes_get(bid,"typicalSecond")
    codes_set(obid,"typicalSecond",sec)
    return 
    
    

def add_wigos_info(ident,bid,wdf,obid):
    '''
    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"):
        shortDelayed=codes_get_array(bid,"shortDelayedDescriptorReplicationFactor")
    elseident=[str("{0:02d}{1:03d}".format(b,s)) for b,s in zip(blockNumber,stationNumber) 
                   if b!=CODES_MISSING_LONG and s!=CODES_MISSING_LONG]
        '''
        here only the first element of the list is returned to the main program
        this avoids lists being used in the dataframe query and breaking the logic
        '''
        if isinstance(ident,list):
            ident=ident[0]
    return ident 


    

def add_wigos_info(ident,bid,odf,obid):
    '''
    add the wigos information to the message ident pointed by bid
    the odf contains the WIGOS information for ident 
    obid is the output handle
    '''
   
    
    if codes_is_defined(bid, "shortDelayedDescriptorReplicationFactor"):
        shortDelayed=codes_get_array(bid,"shortDelayedDescriptorReplicationFactor")
    else:
        shortDelayed=None 

    if codes_is_defined(bid, "delayedDescriptorReplicationFactor"):
        delayedDesc=codes_get_array(bid,"delayedDescriptorReplicationFactor")
    else:
        delayedDesc=None 
        
    if codes_is_defined(bid, "extendedDelayedDescriptorReplicationFactor"):
        extDelayedDesc=codes_get_array(bid,"extendedDelayedDescriptorReplicationFactor")
    else:
        extDelayedDesc=None 

        
    nsubsets=codes_get(bid,"numberOfSubsets")
    compressed=codes_get(bid,"compressedData")
    
    masterTablesVersionNumber=codes_get(bid,"masterTablesVersionNumber")
    if masterTablesVersionNumber<28:
        shortDelayedmasterTablesVersionNumber=None28
 

    if codes_is_defined(bid, "delayedDescriptorReplicationFactor"):   
        delayedDescunexpandedDescriptors=codes_get_array(bid,"delayedDescriptorReplicationFactorunexpandedDescriptors")
    else:outUD=list(unexpandedDescriptors)
    outUD.insert(0,301150)
    delayedDesc=None 
   
     '''
    

only treat the uncompressed messages with 1 subset 
    nsubsets=codes_get(bid,"numberOfSubsets")
    compressed=codes_get(bid,"compressedData")
    for future add treatment of compressed messages with more than 1 subset
    masterTablesVersionNumber=codes_get(bid,"masterTablesVersionNumber")'''
    if masterTablesVersionNumber<28:
    if compressed==0 and  masterTablesVersionNumber=28nsubsets==1:
        '''
    unexpandedDescriptors=codes_get_array(bid,"unexpandedDescriptors")
    outUD=list(unexpandedDescriptors)
    outUD.insert(0,301150)IMPORTANT, takes into account delayed replications ( all possible cases) to accommodate
        
SYNOP + TEMP messages '''
    only  treat the uncompressed'''
 messages with 1 subset 
   if forshortDelayed futureis addnot treatmentNone:
 of compressed messages with more than 1 subset
    '''codes_set_array(obid,"inputShortDelayedDescriptorReplicationFactor",shortDelayed)
    
    if compressed==0 and nsubsets==1:
        if shortDelayeddelayedDesc is not None:
            codes_set_array(obid,"inputShortDelayedDescriptorReplicationFactorinputDelayedDescriptorReplicationFactor",shortDelayeddelayedDesc)
        if delayedDescextDelayedDesc is not None:
            codes_set_array(obid,"inputDelayedDescriptorReplicationFactorinputExtendedDelayedDescriptorReplicationFactor",delayedDescextDelayedDesc)
        copy_header(bid,obid)    

        codes_set(obid,"masterTablesVersionNumber",masterTablesVersionNumber)
        codes_set(obid,"numberOfSubsets",nsubsets)
         odf=wdf.query("oldID=='{0}'".format(ident))

            if not odf.empty:
            codes_set_array(obid, "unexpandedDescriptors",outUD)
            wis=odf["wigosIdentifierSeries"].values 
            if len(wis)!=1:
                wis=wis[0]
            codes_set(obid,"wigosIdentifierSeries",int(wis))
            wid=odf["wigosIssuerOfIdentifier"].values 
            if len(wid)!=1:
                wid=wid[0]
            codes_set(obid,"wigosIssuerOfIdentifier",int(wid))
            win=odf["wigosIssueNumber"].values 
            if lenif len(win)!=1:
                win=win[0]
            codes_set(obid,"wigosIssueNumber",int(win))            
            wlid=odf["wigosLocalIdentifierCharacter"].values 
            wlid="{0:5}".format(wlid[0])
            logging.info(" wlid here {0}".format(wlid))
            codes_set(obid,"wigosLocalIdentifierCharacter",str(wlid))
            codes_bufr_copy_data(bid,obid)
        else:
            logging.info(" wigos skipping compressed  message id {0} is empty for ident with {1} subsets ".format(ident,odf["wigosLocalIdentifierCharacter"].valuesnsubsets))
    else:
    return 
   logging.info(" skipping compressed  message id 
     

def main():
    print("ecCodes version {0} with {1} subsets ".format(ident,nsubsets(codes_get_api_version()))
    args=read_cmd_line()
    returnlogfile=args.logfile obid
    
     

def main():
    args=read_cmd_line()
    logfile=args.logfile 
    logging.basicConfig(filenamelogging.basicConfig(filename=logfile,level=logging.INFO,filemode="w")
    
    infile=args.input 
    
    outfile=args.output 
   
    mode=args.mode 
    if mode=="web":
        jtext=read_oscar_web()
        cdirectory=os.getcwd()
        oscarFile=os.path.join(cdirectory,"oscar.json")
        with open(oscarFile,"w") as f:
            json.dump(jtext,f)
    else:
        cdirectory=os.getcwd()
        oscarFile=os.path.join(cdirectory,"oscar.json")
        with open(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):
        obidbid=codes_bufr_new_from_samplesfile("BUFR4"f)
        bidobid=codes_bufr_new_from_file(fclone(bid)
        codes_set(bid,"unpack", 'skipExtraKeyAttributes', 1)
        codes_set(bid,"unpack",1)
        ident=get_ident(bid)
       
        if ident:
            logging.info (" \t message {0} ident {1} ".format(i+1,ident))

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


if __name__ == '__main__':
    main()


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()