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NOX_P20_1907.R
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NOX_P20_1907.R
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###########################################################################################################################
## Project: NEXTDATA ##
## Parameter: NOx ##
## Script first purpose: create a formatted Level-0 dataset (in EBAS format) from raw data ##
## Script second purpose: create daily acquisition graphs of all instrumentation variables ##
## Run time: the script may run daily (e.g. by using a crontab) or may be used when needed ##
##_______________________________________________________________________________________________________________________##
## Authors: Luca Naitza, Davide Putero ##
## Organization: National Research Council of Italy, Institute for Atmospheric Science and Climate (CNR-ISAC) ##
## Address: Via Gobetti 101, 40129, Bologna, Italy ##
## Project Contact: Paolo Cristofanelli ##
## Email: P.Cristofanelli@isac.cnr.it ##
## Phone number: (+39) 051 639 9597 ##
##_______________________________________________________________________________________________________________________##
## Script filename: NOX_P20_1810.R ##
## Version Date: July 2019
## Feb. 19th, 2019: added duplicates removal
## Jul. 31st, 2019: "days_ref" substituted with "dependent_col", i.e., the number of dependent data columns (in the header)
###########################################################################################################################
# > > > > > > > > > > > > > > I N S T R U C T I O N S < < < < < < < < < < < < < < < < < < < < < < < < #
#
# This script consists of several parts and sub-parts.
#
# Part 0 is the setting section, in which the User should replace the marked values (e.g. directory paths)
# Part 0.1 defines environmental variables, such as raw data and destination directories. The user should modify these values.
# Part 0.2 specifies some characteristics of raw data tables, such as file extension, fields separators, etc. The user should
# modify these values according to his/her tables format. If the procedure requires more than one parameter
# setting, Part 0.2 is divided in sub-sub-parts (e.g. 0.2.1 , 0.2.2,...)
# Part 0.3 specifies the characteristics of User Station/Laboratory/Instrument/parameter. Most of these variables are used
# as metadata in the EBAS file format header. The User should provide proper information.
#
# Part 1 is another setting section; it should not be modified by the user unless strictly needed.
# Part 1.1 sets and loads the most commonly used R libraries. The user should not modify this sub-part.
# Part 1.2 specifies the time variables used in the processing. The user should not modify this sub-part. If the user needs
# to apply the script to data older than the current year, he/she may modify the lines explicitly marked for this purpose.
#
# Part 2 is the data processing section, it should not be modified by the user.
# Part 2.x contain the code to produce the EBAS format file and to process data. The User should not modify this sub-part(s).
#
# Part 3 is the data reporting section, it should not be modified by the user.
# Part 3.x contain the code to produce graphic reports. The user should not modify this sub-part(s).
#
# > > > > > > > > > > > > > > > > > > > > > > > > > > > < < < < < < < < < < < < < < < < < < < < < < < < < < < < < < < < < #
###########################################################################################################################
## # PART 0.1 #
## ______________________________________________________________________________________________________________________##
## Setting environmental variables
## ______________________________________________________________________________________________________________________##
## USE: set the following paths of origin raw data and of destination processing data, replacing values with yours
# WARNING: Proper setting up of the following paths and values is crucial. Please, replace the strings correctly
#
setwd("~/")
# -------- RAW DATA PATH ----------------------------------------------------------------------# REPLACE THE FOLLOWING PATHS
CALIB_DIR = '../naitza/NEXTDATA/PROD/CIMONE/GAS/NO/RAW_DATA_UTC/CALIB'
RAW_DIR = '../naitza/NEXTDATA/PROD/CIMONE/GAS/NO/RAW_DATA_UTC'
METEO_RAW_DIR = '../naitza/NEXTDATA/PROD/CIMONE/METEO/METEO/RAW_DATA_UTC'
#
# -------- DATA DESTINATION PATH --------------------------------------------------------------# REPLACE THE FOLLOWING PATHS
L0_DIR = '../naitza/NEXTDATA/DISTRIBUTION_DIR/CIMONE/GAS/NO/LEVEL_0'
L1_DIR = '../naitza/NEXTDATA/DISTRIBUTION_DIR/CIMONE/GAS/NO/LEVEL_1'
L2_DIR = '../naitza/NEXTDATA/DISTRIBUTION_DIR/CIMONE/GAS/NO/LEVEL_2'
L0_ANCIL_DIR = '../naitza/NEXTDATA/DISTRIBUTION_DIR/CIMONE/GAS/NO/LEVEL_0/ANCILLARY'
#
# -------- GRAPH DESTINATION PATH -------------------------------------------------------------# REPLACE THE FOLLOWING PATHS
REP_DIR = '../naitza/NEXTDATA/DISTRIBUTION_DIR/CIMONE/GAS/NO/REPORT'
REP_GRAPH_DIR = '../naitza/NEXTDATA/DISTRIBUTION_DIR/CIMONE/GAS/NO/REPORT/DAILY_GRAPH'
PLOT_DIR_M = '../naitza/NEXTDATA/DISTRIBUTION_DIR/CIMONE/GAS/NO/REPORT/MONTHLY_GRAPH'
PLOT_DIR_S = '../naitza/NEXTDATA/DISTRIBUTION_DIR/CIMONE/GAS/NO/REPORT/SEASONAL_GRAPH'
PLOT_DIR_Y = '../naitza/NEXTDATA/DISTRIBUTION_DIR/CIMONE/GAS/NO/REPORT/ANNUAL_GRAPH'
PLOT_DIR_Y_PDF = '../naitza/NEXTDATA/DISTRIBUTION_DIR/CIMONE/GAS/NO/REPORT/ANNUAL_GRAPH/PDF'
PLOT_DIR_T = '../naitza/NEXTDATA/DISTRIBUTION_DIR/CIMONE/GAS/NO/REPORT/TIMEVARIATION_GRAPH'
#
# -------- DAILY GRAPH PREFIX & SUFFIX -------------------------------------------------------# REPLACE THE FOLLOWING VALUES
DAILY_PREFIX <-"CMN_NO" # choose a prefix for your daily graph (e.g. StationCodeName_ParameterCodeName)
DAILY_SUFFIX <-"01M" # choose a suffix for your daily graph (e.g. AcquisitionTiming)
#
# -------- SCRIPTS PATH ----------------------------------------------------------------------# REPLACE THE FOLLOWING PATHS
SCRIPT_DIR = '../naitza/NEXTDATA/R_SCRIPT'
## Loading functions for numflags
## The "NXD_numflag_functions_180301.R" scripts assigns the numflag value to the dataset, according to EBAS Flag List
## (https://ebas-submit.nilu.no/Submit-Data/List-of-Data-flags)
## The "NXD_EBAS_numflag_FullList_180103.txt" text file contains the EBAS Flag List, reporting codes, category and description
## Please do NOT apply any change to the following function settings, unless you need to specify a different table of flags
#
source(paste(SCRIPT_DIR,"NXD_numflag_functions_180301.R", sep="/"))
tab_nf <- read.table(file = paste(SCRIPT_DIR,"NXD_EBAS_numflag_FullList_180103.txt",sep="/"),
sep = ";", header = TRUE, quote = NULL)
## # END PART 0.1 #
###########################################################################################################################
###########################################################################################################################
## # PART 0.2 #
## ______________________________________________________________________________________________________________________##
## Setting NO Data
## ______________________________________________________________________________________________________________________##
## USE: set the following values of NO dataset
## WARNING: NO raw data should be recorded according to the following specifications:
## FILENAME: the filename should contain the acquisition date (YYYYMMDD). E.g.: CMN_NO_20181215_01M.dat;
#
# -------- NO RAW DATASET EXTENSION ----------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
NO_EXT <-".dat" # if different, replace ".dat" with the extesion of your NO Raw Data set
#
# -------- NO RAW DATA FIELD SEPARATOR -------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
NO_FIELD_SEP <-" " # if different, replace " " with the field separator of your NO Raw Data set (e.g. "," or "\t")
#
# -------- NO RAW DATA HEADER ----------------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
NO_FIELD_NAM <- T # if different, replace T with F if NO Raw Data tables do not have the header (field names)
#
# -------- NO FIELD POSITION IN THE TABLE -----------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
NO_DEC_DATE <- 6 # if different, replace with the field position of start_time (julian date) field in your NO Raw Data set
NO <- 7 # if different, replace with the field position of NO field in your NO Raw Data set
NO2 <- 8 # if different, replace with the field position of NO2 field in your NO Raw Data set
NOx <- 9 # if different, replace with the field position of NOx field in your NO Raw Data set
NO_PRE <- 10 # if different, replace with the field position of Pre field in your NO Raw Data set
NO_FLOW_SAMPLE<- 20 # if different, replace with the field position of Flow_sample field in your NO Raw Data set
NO_P_CHAMBER <- 18 # if different, replace with the field position of P_chamb field in your NO Raw Data set
NO_T_COOLER <- 15 # if different, replace with the field position of T_Cooler field in your NO Raw Data set
NO_T_CHAMBER <- 14 # if different, replace with the field position of T_chamber field in your NO Raw Data set
NO_T_INTERNA <- 13 # if different, replace with the field position of T_internal field in your NO Raw Data set
PMT_V <- 16 # if different, replace with the field position of PMT_V field in your NO Raw Data set
#
## ______________________________________________________________________________________________________________________##
## Setting NO CALIBRATION Data
## ______________________________________________________________________________________________________________________##
## USE: set the following values of NO dataset
## WARNING: CALIBRATION NO raw data should be recorded according to the following specifications:
## FILENAME: the filename should contain the acquisition date (YYYYMMDD). E.g.: CMN_NO_20181215_01M.dat;
#
# -------- NO RAW DATASET EXTENSION ----------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
CALIB_EXT <-".dat" # if different, replace ".dat" with the extesion of your NO Raw Data set
#
# -------- NO RAW DATA FIELD SEPARATOR -------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
CALIB_FIELD_SEP <-" " # if different, replace " " with the field separator of your NO Raw Data set (e.g. "," or "\t")
#
# -------- NO RAW DATA HEADER ----------------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
CALIB_FIELD_NAM <- T # if different, replace T with F if NO Row Data tables do not have the header (filed names)
#
# -------- NO FIELD POSITION IN THE TABLE -----------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
CALIB_DEC_DATE <- 6 # if different, replace with the field position of start_time (julian date) field in your Calibration Data set
CALIB_GAS_CONC <- 7 # if different, replace with the field position of Gas Concentration field in your Calibration Data set
CALIB_GAS_FLOW_TG <- 13 # if different, replace with the field position of Gas Flow Target field in your Calibration Data set
CALIB_STATUS <- 59 # if different, replace with the field position of Status field in your Calibration Data set
#
# -------- CALIB STATUS ------------------------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
Status_SPAN <- "Span" # if different, replace with the value reported in the SPAN filed for "Span" condition
Status_ZERO <- "Zero" # if different, replace with the value reported in the SPAN filed for "Zero" condition
Status_STBY <- "StandBy" # if different, replace with the value reported in the SPAN filed for "Standby" condition
#
## ______________________________________________________________________________________________________________________##
## Setting Meteo Data
## ______________________________________________________________________________________________________________________##
## USE: set the following values to properly link on-site measured Pressure, Temperature and RH values to CPC dataset
## WARNING: Meteo raw data should be recorded according to the following specifications:
## FILENAME: the filename should contain the acquisition date (YYYYMMDD). E.g.: CMN_METEO_20181215_01M.dat;
#
# -------- METEO RAW DATASET EXTENSION ----------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
METEO_EXT <-".dat" # if different, replace ".dat" with the extesion of your Meteo Raw Data set
#
# -------- METEO RAW DATA FIELD SEPARATOR -------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
METEO_FIELD_SEP <-" " # if different, replace " " with the field separator of your Meteo Raw Data set (e.g. "," or "\t")
#
# -------- METEO RAW DATA HEADER -----------------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
METEO_FIELD_NAM <- T # if different, replace "T" with "F" if Meteo Row Data tables do not have the header (field names)
#
# -------- METEO FIELD POSITION -----------------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
METEO_DEC_DATE <- 6 # if different, replace with the field position of start_time (julian date) field in your Meteo Raw Data set
METEO_P <- 15 # if different, replace with the field position of Pressure field in your Meteo Raw Data set
METEO_SD_P <- 16 # if different, replace with the field position of SD Pressure field in your Meteo Raw Data set
METEO_T <- 11 # if different, replace with the field position of Temperature field in your Meteo Raw Data set
METEO_SD_T <- 12 # if different, replace with the field position of SD Temperature field in your Meteo Raw Data set
#
# -------- METEO UNITS ------------------------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
METEO_T_UNIT <- "C" # if different, replace with the value of the Temperature Unit (C= Celsius; K = Kelvin)
#
## # END PART 0.2 #
###########################################################################################################################
###########################################################################################################################
## # PART 0.3 #
## ______________________________________________________________________________________________________________________##
## Setting time and name variables
## Setting EBAS metadata inrofmation
## ______________________________________________________________________________________________________________________##
# Station/Laboratory/Instrument/parameter variables
#
# -------- EBAS HEADER FILE (METADATA) -----------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
s_code <- "IT0009R" # replace the value with your Station code
s_WDCA_ID <- "GAWANO_CMN" # replace the value with your WDCA ID code
s_GAW_Name <- "Monte Cimone" # replace the value with your Station GAW name
s_GAW_ID <- "CMN" # replace the value with your Station GAW ID
s_lat <- "44.16667" # replace the value with your Station latitude
s_lon <- "10.68333" # replace the value with your Station longitude
s_alt <- "2165m" # replace the value with your Station altitude (meters)
s_l_use <- "Remote park" # replace the value with your Station land use
s_setting <- "Mountain" # replace the value with your Station setting
s_GAW_t <- "G" # replace the value with your Station GAW type
s_WMO_reg <- "6" # replace the value with your Station WMO region
lab_code <- "IT06L" # replace the value with your laboratory code
inst_type <- "chemiluminescence_photolytic" # replace the value with your instrument type
inst_manu <- "ThermoScientific" # replace the value with your instrument manufacter
inst_modl <- "tei42iTL+BLC" # replace the value with your instrument model
inst_name <- "ThermoScientific_Tei42TL_CMN" # replace the value with your your instrument name
inst_s_n <- " " # replace the value with your instrument serial number
meth_ref <- " " # replace the value with method reference
dependent_col <- "10" # replace the value with the total number of columns of the file in addition to start_time (i.e., total-1)
component <- "NOx" # replace the value with proper component
matrix <- "air" # replace the value with proper matrix
meas_unit <- "nmol/mol" # replace the value with proper measurement unit
meas_lat <- "44.16667" # replace the value with the your Measure latitude
meas_lon <- "10.68333" # replace the value with the your Measure longitude
meas_alt <- "2165m" # replace the value with the your Measure altitude (meters)
Period_code <- "1y" # replace the value with the proper Period code
Resolution_code <- "1mn" # replace the value with the proper Resolution code
Sample_duration <- "1mn" # replace the value with the proper Sample duration
Orig_time_res <- "1mn" # replace the value with the proper Original time resolution
std_meth <- "SOP=ACTRIS_NOxy_2014" # replace the value with Standard method
inlet_type <- "Hat or hood" # replace the value with Inlet type
inlet_desc <- "The air intake is composed by an external (outside building) steel pipe (internally covered by Teflon) and the internal (inside building) Pyrex pipe" # replace the value with Inlet description
inlet_mat <- "Teflon" # replace the value with Inlet material
inlet_out_d <- "6.35 mm" # replace the value with Inlet outer diameter
inlet_in_d <- "" # replace the value with Inlet inner diameter
inlet_lenght <- "1.5 m" # replace the value with Inlet tube length
time_en_inlet <- "2.5s" # replace the value with Time from entry inlet line to entry of converter
duration_conv <- "1s" # replace the value with Duration of stay in converter
flow_rate <- "0.40 l/min" # replace the value with Flow rate
zero_check <- "automatic" # replace the value with Zero/span check type
zero_inter <- "1d" # replace the value with Zero/span check interval
hum_temp_c <- "none" # replace the value with Humidity/temperature control
hum_temp_c_desc <- "Passive, inlet air heated from atmospheric to converter temperature" # replace the value with Humidity/temperature control description
vol_std_t <- "293.15 K" # replace the value with Volume std. temperature
vol_std_p <- "1013.25 hPa" # replace the value with Volume std. pressure
detec_lim <- "0.11 ppb" # replace the value with Detection limit
detec_lim_ex <- "Determined by zero noise" # replace the value with Detection limit expl.
qa_mes_id <- "not available" # replace the value with QA measure ID
#qa_date <- "not available" # replace the value with QA date
qa_doc <- "not available" # replace the value with QA document URL
# The following variabiles concern the originator and the submitter names, surnames, emails and addresses
# NOTE: Please, change these variables with proper names, surnames, emails and addresses
#
# -------- ORIGINATORS (set min 1 originator, max 5) ---------------------------------------------------------------# REPLACE THE FOLLOWING VALUES
Origin_1_n <- "Paolo"
Origin_1_s <- "Cristofanelli"
Origin_1_e <- "p.cristofanelli@isac.cnr.it"
Origin_1_i <- "Institute of Atmospheric Sciences and Climate, ISAC,, Via P. Gobetti 101,, I-40129, Bologna, Italy"
Origin_2_n <- "Luca"
Origin_2_s <- "Naitza"
Origin_2_e <- "l.naitza@isac.cnr.it"
Origin_2_i <- "Institute of Atmospheric Sciences and Climate, ISAC,, Via P. Gobetti 101,, I-40129, Bologna, Italy"
Origin_3_n <- "Davide"
Origin_3_s <- "Putero"
Origin_3_e <- "d.putero@isac.cnr.it"
Origin_3_i <- "Institute of Atmospheric Sciences and Climate, ISAC,, Via P. Gobetti 101,, I-40129, Bologna, Italy"
Origin_4_n <- "Francescopiero"
Origin_4_s <- "Calzolari"
Origin_4_e <- "f.calzolari@isac.cnr.it"
Origin_4_i <- "Institute of Atmospheric Sciences and Climate, ISAC,, Via P. Gobetti 101,, I-40129, Bologna, Italy"
Origin_5_n <- ""
Origin_5_s <- ""
Origin_5_e <- ""
Origin_5_i <- ""
# -------- SUBMITTER (set the submitter) --------------------------------------------------------------------------# REPLACE THE FOLLOWING VALUES
#
Submit_1_n <- "Paolo"
Submit_1_s <- "Cristofanelli"
Submit_1_e <- "p.cristofanelli@isac.cnr.it"
Submit_1_i <- "Institute of Atmospheric Sciences and Climate, ISAC,, Via P. Gobetti 101,, I-40129, Bologna, Italy"
mycomment <- ""
#
# Setting the lines of the header
#
if (nchar(Origin_2_n) == 0 && nchar(Origin_3_n) == 0 && nchar(Origin_4_n) == 0 && nchar(Origin_5_n) == 0) { L0_n_lines <- 88 + 0 }
if (nchar(Origin_2_n) > 0 && nchar(Origin_3_n) == 0 && nchar(Origin_4_n) == 0 && nchar(Origin_5_n) == 0) { L0_n_lines <- 88 + 1 }
if (nchar(Origin_2_n) > 0 && nchar(Origin_3_n) > 0 && nchar(Origin_4_n) == 0 && nchar(Origin_5_n) == 0) { L0_n_lines <- 88 + 2 }
if (nchar(Origin_2_n) > 0 && nchar(Origin_3_n) > 0 && nchar(Origin_4_n) > 0 && nchar(Origin_5_n) == 0) { L0_n_lines <- 88 + 3 }
if (nchar(Origin_2_n) > 0 && nchar(Origin_3_n) > 0 && nchar(Origin_4_n) > 0 && nchar(Origin_5_n) > 0) { L0_n_lines <- 88 + 4 }
#
# -------------------------------------------------------------------------------------------
## # END PART 0.3 #
###########################################################################################################################
###########################################################################################################################
## # PART 1.0 #
## ______________________________________________________________________________________________________________________##
## Loading libraries
## ______________________________________________________________________________________________________________________##
## NOTE: some of the following libraries may not be actually used by this script
# Please, do NOT apply any change, unless it is necessary to load specific libraries
#
library(data.table)
library(openair)
library(lattice)
library(RColorBrewer)
library(latticeExtra)
library(proto)
library(gsubfn)
library(RSQLite)
library(padr)
library(caTools)
library(zoo)
library(plyr)
library(forecast)
library("sqldf")
library(TTR)
library(ggplot2)
library(reshape2)
library(stringr)
library(png)
#
## # END PART 1.0 #
###########################################################################################################################
###########################################################################################################################
## # PART 1.1 #
## ______________________________________________________________________________________________________________________##
## Setting time and name variables
## Cleaning destination directory
## ______________________________________________________________________________________________________________________##
# Station/Laboratory/Instrument/parameter variables
# NOTE: Please, change these variables with proper station and parameter information
#
# The following variabiles concern the parameter and the level
# NOTE: Please, do NOT change these variables
#
param_code <- "chemiluminescence_photolytic.NOx.air.1y.1mn.IT06L_ThermoScientific_Tei42TL_CMN"
level_code <- "lev0.nas"
#
# -------------------------------------------------------------------------------------------
# Time variables
# NOTE: the following variables should not be modified, except those with explicit comments
#
questo_anno <-format(Sys.Date(), "%Y")
# -------- PREVIOUS YEAR(S) DATA PROCESSING ---------------------------------------# IF NEEDED, UN-COMMENT THE FOLLOWING LINE
#questo_anno <-as.numeric(questo_anno) -1 # the value "-1" means "last year". Change to "-2" or "-3" etc. for previous
questo_mese <-format(Sys.Date(), "%m")
questo_mese_nome <-format(Sys.Date(), "%B")
questo_giorno <-format(Sys.Date(), "%d")
if (questo_mese == "01" & questo_giorno == "01") { questo_anno == questo_anno-1 }
questo_capodanno <-paste(questo_anno,"01","01",sep="-")
questo_annomesegiorno <-paste(questo_anno,questo_mese,questo_giorno,sep="")
questa_ora <-format(Sys.time(), "%H")
questo_minuto <-format(Sys.time(), "%M")
questo_inizioanno <-paste(questo_anno,"0101000000",sep = "")
questi_dati <-paste(s_code,questo_inizioanno,sep = ".")
questa_start_time <-as.Date(paste(paste(questo_anno,"01","01",sep = "-"), " 00:00:00",sep = ""))
myweekday <-as.POSIXlt(Sys.Date())$wday
questo_startdate <-paste(questo_anno,"0101",sep="")
new_date <-gsub("-","",
gsub(" ","",
gsub(":","",
as.character(strptime(Sys.time(),
format = "%Y - %m - %d %H : %M")))))
new_date_name <-paste(".",new_date,sep="")
rev_datime <-gsub("-","",
gsub(" ","",
gsub(":","",
as.character(strptime(new_date,
format = "%Y%m%d%H%M%S")-3600))))
DATA_OSS <-paste(questo_anno,"01 01")
DATA_REV <-gsub("-"," ",Sys.Date())
DATA_INSERT <-paste(DATA_OSS,DATA_REV,sep=" ")
# -------------------------------------------------------------------------------------------
# File name variables
# NOTE: the following variables should not be modified
#
EBAS_L0_FILENAME <-paste(s_code,questo_inizioanno,rev_datime,param_code,level_code,sep=".")
EBAS_L0_FULLFILENAME <-paste(L0_DIR,EBAS_L0_FILENAME,sep = "/")
EBAS_temp_FILENAME <-paste(L0_DIR,paste("temp_NO_",EBAS_L0_FILENAME,sep=""),sep = "/")
CALIB_temp_FILENAME <-paste(L0_DIR,paste("temp_CALIB_",EBAS_L0_FILENAME,sep=""),sep = "/")
METEO_temp_FULLFILENAME <-paste(L0_DIR,paste("temp_METEO_",EBAS_L0_FILENAME,sep=""),sep = "/")
FINAL_temp_FULLFILENAME <-paste(L0_DIR,paste("temp_FINAL_",EBAS_L0_FILENAME,sep=""),sep = "/")
#
# -------------------------------------------------------------------------------------------
# Check point: printing variables
#
questo_anno
questo_mese
questo_mese_nome
questo_giorno
questo_capodanno
questo_annomesegiorno
questa_ora
questo_minuto
questo_inizioanno
questa_start_time
myweekday
questo_startdate
new_date
new_date_name
rev_datime
EBAS_L0_FILENAME
EBAS_L0_FULLFILENAME
CALIB_temp_FILENAME
METEO_temp_FULLFILENAME
FINAL_temp_FULLFILENAME
# # END PART 1.1 #
###########################################################################################################################
###########################################################################################################################
## # PART 2.0 #
## ______________________________________________________________________________________________________________________##
## Creation of Level-0 data file
## Cleaning Destination directory
## Formatting Level-0 header
## ______________________________________________________________________________________________________________________##
# Deleting temporary files in the destination directory (if present)
#
FILE_TMP <-list.files(path = L0_DIR, pattern = glob2rx("temp_*"),
all.files = FALSE,
full.names = F,
recursive = FALSE,
ignore.case = FALSE,
include.dirs = F,
no.. = FALSE)
LISTA_FILE_TMP <-as.character(FILE_TMP)
LISTA_FILE_TMP
for(f in LISTA_FILE_TMP) { file.remove(paste(L0_DIR,f,sep = "/")) }
#
# -------------------------------------------------------------------------------------------
# Cleaning Destination directory
# NOTE: the following process deletes old EBAS Level-0 files within the destination directory
#
MYOLD_FILE <-paste(s_code,".",questo_anno,sep = "")
FILE_OLD <-list.files(path = L0_DIR, pattern = glob2rx(paste(MYOLD_FILE,"*",sep = "")),
all.files = FALSE,
full.names = F,
recursive = FALSE,
ignore.case = FALSE,
include.dirs = F,
no.. = FALSE)
FILE_OLD
LISTA_FILE_OLD <-as.character(FILE_OLD)
for(f in LISTA_FILE_OLD) { file.remove(paste(L0_DIR,f,sep = "/")) }
# -------------------------------------------------------------------------------------------
# Cleaning destination directory of check table
#
ANC_OLD <-list.files(path = L0_ANCIL_DIR, pattern = glob2rx(paste("NOx_","*",questo_anno,"*",sep = "")), all.files = FALSE,
full.names = F, recursive = FALSE,
ignore.case = FALSE, include.dirs = F, no.. = FALSE)
ANC_OLD
LISTA_FILE_OLD<-as.character(ANC_OLD)
for(f in LISTA_FILE_OLD)
{
file.remove(paste(L0_ANCIL_DIR,f,sep = "/"))
}
#
# -------------------------------------------------------------------------------------------
# Creating the new EBAS LEVEL-0 data file
# NOTE: the following process deletes old EBAS Level-0 files within the destination directory
#
write.table(" ", file=EBAS_L0_FULLFILENAME,row.names=F,col.names = F, append = F,sep=" ")
#
# -------------------------------------------------------------------------------------------
# Formatting EBAS LEVEL-0 header and adding information to the data file
# NOTE: information contained in the following lines should be modified with proper station and instrumentation information
#
cat(
paste(L0_n_lines,"1001",sep=" "),
gsub("; $","",gsub("; ;","",paste(paste(Origin_1_n,Origin_1_s,sep=", "),
ifelse(nchar(Origin_2_n)>0,
(paste(Origin_2_n,Origin_2_s,sep=", ")), ""),
ifelse(nchar(Origin_3_n)>0,
(paste(Origin_3_n,Origin_3_s,sep=", ")), ""),
ifelse(nchar(Origin_4_n)>0,
(paste(Origin_4_n,Origin_4_s,sep=", ")), ""),
ifelse(nchar(Origin_5_n)>0,
(paste(Origin_5_n,Origin_5_s,sep=", ")), ""),
sep="; "))),
paste(lab_code, Origin_1_i,sep=", "),
paste(Submit_1_n, Submit_1_s, sep=", "),
"GAW-WDCA, ACTRIS
1 1",
DATA_INSERT,
"0
Days from the file reference point (start_time)",
dependent_col,
"1 1 1 1 1 1 1 1 1 1
999.99999999 999.999 0.999999999 999.999 0.999999999 99.99 999.99 0.999999999 9999.99 0.999999999
end_time of measurement, days from the file reference point
nitrogen_monoxide, nmol/mol, Method ref=IT06L_chem_photoly_Thermo42iTL
numflag nitrogen_monoxide, no unit
nitrogen_dioxide, nmol/mol, Method ref=IT06L_chem_photoly_Thermo42iTL
numflag nitrogen_dioxide, no unit
converter_efficiency, %, Method ref=IT06L_chem_photoly_BLC
temperature, K, Location=inlet, Matrix=instrument,Method ref=IT06L_Rotronics
numflag temperature, no unit
pressure, hPa, Location=inlet, Matrix=instrument,Method ref=IT06L_Technoel
numflag pressure, no unit
0",
(L0_n_lines - 24),
"Data definition: EBAS_1.1
Data level: 0
Version: 1
Version description: initial revision
Set type code: TI",
paste("Station code: ",s_code,sep=""),
paste("Platform code: ",gsub("R","S",s_code)),
"Timezone: UTC",
paste("Startdate: ",questo_inizioanno[1],sep=""),
paste("Revision date: ",as.numeric(new_date)-7200,sep=""),
paste("Component: ",component,sep=""),
paste("Matrix: ",matrix,sep=""),
paste("Unit: ",meas_unit,sep=""),
paste("Period code: ",Period_code,sep=""),
paste("Resolution code: ",Resolution_code,sep=""),
paste("Sample duration: ",Sample_duration,sep=""),
paste("Orig. time res.: ",Orig_time_res,sep=""),
paste("Laboratory code: ",lab_code,sep=""),
paste("Instrument type: ",inst_type,sep=""),
paste("Instrument manufacturer: ",inst_manu,sep=""),
paste("Instrument model: ",inst_modl,sep=""),
paste("Instrument name: ",inst_name,sep=""),
paste("Instrument serial number: ",inst_s_n,sep=""),
paste("Method ref: ",meth_ref,sep=""),
paste("File name: ",EBAS_L0_FILENAME,sep=""),
paste("File creation: ",rev_datime[1],sep=""),
paste("Station WDCA-ID: ",s_WDCA_ID,sep=""),
paste("Station GAW-Name: ",s_GAW_Name,sep=""),
paste("Station GAW-ID: ",s_GAW_ID,sep=""),
paste("Station latitude: ",s_lat,sep=""),
paste("Station longitude: ",s_lon,sep=""),
paste("Station altitude: ",s_alt,sep=""),
paste("Station land use: ",s_l_use,sep=""),
paste("Station setting: ",s_setting,sep=""),
paste("Station GAW type: ",s_GAW_t,sep=""),
paste("Station WMO region: ",s_WMO_reg,sep=""),
paste("Measurement latitude: ",meas_lat,sep=""),
paste("Measurement longitude: ",meas_lon,sep=""),
paste("Measurement altitude: ",meas_alt,sep=""),
paste("Inlet type: ",inlet_type,sep=""),
paste("Inlet description: ",inlet_desc,sep=""),
paste("Inlet tube material: ",inlet_mat,sep=""),
paste("Inlet tube outer diameter: ",inlet_out_d,sep=""),
paste("Inlet tube inner diameter: ",inlet_in_d,sep=""),
paste("Inlet tube length: ",inlet_lenght,sep=""),
paste("Duration of stay in converter or bypass line: ","",sep=""),
paste("Duration of stay in converter: ",duration_conv,sep=""),
paste("Humidity/temperature control: ",hum_temp_c,sep=""),
paste("Humidity/temperature control description: ",hum_temp_c_desc,sep=""),
paste("Volume std. temperature: ",vol_std_t,sep=""),
paste("Volume std. pressure: ",vol_std_p,sep=""),
paste("Detection limit: ",detec_lim,sep=""),
paste("Detection limit expl.: ",detec_lim_ex,sep=""),
paste("Zero/span check type: ",zero_check,sep=""),
paste("Zero/span check interval: ",zero_inter,sep=""),
paste("Standard method: ",std_meth,sep=""),
paste("QA measure ID ",qa_mes_id,sep=""),
paste("QA date: ",paste(questo_anno,questo_mese,questo_giorno,sep=""),sep=""),
paste("QA document URL: ",qa_doc,sep=""),
paste("Originator: ",paste(Origin_1_n,Origin_1_s,Origin_1_e,Origin_1_i,sep=", "),sep=""),
paste("Originator: ",paste(Origin_2_n,Origin_2_s,Origin_2_e,Origin_2_i,sep=", "),sep=""),
paste("Originator: ",paste(Origin_3_n,Origin_3_s,Origin_3_e,Origin_3_i,sep=", "),sep=""),
if(nchar(Origin_4_n)>0) {paste("Originator: ",paste(Origin_4_n,Origin_4_s,Origin_4_e,Origin_4_i,sep=", "),sep="")},
if(nchar(Origin_5_n)>0) {paste("Originator: ",paste(Origin_5_n,Origin_5_s,Origin_5_e,Origin_5_i,sep=", "),sep="")},
paste("Submitter: ",paste(Submit_1_n,Submit_1_s,Submit_1_e,Submit_1_i,sep=", "),sep=""),
paste("Comment: ",mycomment,sep=""),
"Acknowledgement: Request acknowledgment details from data originator",
paste("start_time","end_time","NO","numflag_NO","NO2","numflag_NO2","converter_eff","Inlet_T","numflag","Inlet_P","numflag",sep=" "),
file=EBAS_L0_FULLFILENAME, append=F, sep = "\n")
## # END PART 2.0 #
###########################################################################################################################
###########################################################################################################################
## # PART 2.1 #
## ______________________________________________________________________________________________________________________##
## Importing raw data
## Processing, manipulation, transformation of raw data
## Level-0 data flagging
## Writing data in Level-0 data file (EBAS format)
## ______________________________________________________________________________________________________________________##
# Listing the NO Raw data
#
lsfiles <-file.info(dir(RAW_DIR, pattern = glob2rx(paste0("*",NO_EXT)), full.names = F, ignore.case = TRUE))
lista <-data.frame(lsfiles[order(lsfiles$mtime),])
setDT(lista, keep.rownames = T)[]
names(lista)[1] <-"fileName"
df_lista <-data.frame(lista[fileName %like% questo_anno])
names(df_lista)[1] <-"fileName"
df_lista$mydata <-df_lista
ndata <- NROW(df_lista)
#
# -------------------------------------------------------------------------------------------
# Creating temporary NO dataset for current year
#
for(j in df_lista$fileName) {
ULTIMO_DATO <-paste(RAW_DIR,j, sep="/")
ULTIMO_DATO_NAME <-basename(ULTIMO_DATO)
TABELLA <-read.table(file=ULTIMO_DATO,fill = T, header = NO_FIELD_NAM, row.names=NULL)
names(TABELLA)[NO_DEC_DATE] <-"start_time"
names(TABELLA)[NO] <-"NO"
names(TABELLA)[NO2] <-"NO2"
names(TABELLA)[NOx] <-"NOx"
names(TABELLA)[NO_PRE] <-"Pre"
names(TABELLA)[NO_FLOW_SAMPLE] <-"Flow_sample"
names(TABELLA)[NO_P_CHAMBER] <-"P_chamb"
names(TABELLA)[NO_T_COOLER] <-"T_Cooler"
names(TABELLA)[NO_T_CHAMBER] <-"T_chamber"
names(TABELLA)[NO_T_INTERNA] <-"T_internal"
names(TABELLA)[PMT_V] <-"PMT_V"
#
# -------------------------------------------------------------------------------------------
# Adding new fields
#
TABELLA$end_time <-as.numeric(TABELLA$start_time) + 0.00069444
TABELLA$code <-gsub(" ","",paste("code",format(TABELLA$start_time,digits=5,nsmall = 5),sep="_"))
TABELLA <-subset(TABELLA, select=c("start_time","end_time","NO","NO2","NOx",
"Pre","Flow_sample","P_chamb","T_Cooler","T_chamber", "T_internal", "PMT_V","code"))
write.table(TABELLA, file=EBAS_temp_FILENAME,row.names=F,col.names = F, append = T, quote = F,sep=" ")
}
#
# -------------------------------------------------------------------------------------------
# Listing the METEO Raw data
#
lsfiles <-file.info(dir(CALIB_DIR, pattern = glob2rx(paste0("*",CALIB_EXT)), full.names = F, ignore.case = TRUE))
lista <-data.frame(lsfiles[order(lsfiles$mtime),])
setDT(lista, keep.rownames = T)[]
names(lista)[1] <-"fileName"
df_lista <-data.frame(lista[fileName %like% questo_anno])
names(df_lista)[1] <-"fileName"
df_lista$mydata <-df_lista
ndata <- NROW(df_lista)
#
# -------------------------------------------------------------------------------------------
# Creating temporary CALIBRATION dataset for current year
#
for(j in df_lista$fileName) {
ULTIMO_DATO <-paste(CALIB_DIR,j, sep="/")
ULTIMO_DATO_NAME <-basename(ULTIMO_DATO)
CALIB_TABELLA <-read.table(file=ULTIMO_DATO,fill = T, header = CALIB_FIELD_NAM, row.names=NULL)
names(CALIB_TABELLA)[CALIB_DEC_DATE] <-"start_time"
names(CALIB_TABELLA)[CALIB_GAS_CONC] <-"Gas_conc"
names(CALIB_TABELLA)[CALIB_GAS_FLOW_TG] <-"Gasflow_target"
names(CALIB_TABELLA)[CALIB_STATUS] <-"status"
CALIB_TABELLA$code <-gsub(" ","",paste("code",format(CALIB_TABELLA$start_time,digits=5,nsmall = 5),sep="_"))
#
# -------------------------------------------------------------------------------------------
# writing calibration temponary table
#
CALIB_TABELLA <-subset(na.omit(CALIB_TABELLA), select=c("start_time","Gas_conc", "Gasflow_target","status","code"))
write.table(CALIB_TABELLA, file=CALIB_temp_FILENAME,row.names=F,col.names = F, append = T, quote = F,sep=" ")
}
#
# -------------------------------------------------------------------------------------------
# Listing the METEO Raw data
#
lsfiles <-file.info(dir(METEO_RAW_DIR, pattern = glob2rx(paste0("*",METEO_EXT)), full.names = F, ignore.case = TRUE))
lista <-data.frame(lsfiles[order(lsfiles$mtime),])
setDT(lista, keep.rownames = T)[]
names(lista)[1] <-"fileName"
df_lista <-data.frame(lista[fileName %like% questo_anno])
names(df_lista)[1] <-"fileName"
df_lista$mydata <-df_lista
ndata <- NROW(df_lista)
#
# -------------------------------------------------------------------------------------------
# Creating temporary METEO dataset for current year
#
for(j in df_lista$fileName) {
ULTIMO_DATO <-paste(METEO_RAW_DIR,j, sep="/")
ULTIMO_DATO_NAME <-basename(ULTIMO_DATO)
METEO_TABELLA <-read.table(file=ULTIMO_DATO,fill = T, header = METEO_FIELD_NAM, row.names=NULL)
names(METEO_TABELLA)[METEO_DEC_DATE] <-"start_time"
names(METEO_TABELLA)[METEO_P] <-"P"
names(METEO_TABELLA)[METEO_T] <-"T"
if(METEO_T_UNIT == "C") { METEO_TABELLA$T <- METEO_TABELLA$T + 273.15 }
if(METEO_SD_P == 0) { METEO_TABELLA$SD_P <- sd(METEO_TABELLA$P) }
else { names(METEO_TABELLA)[METEO_SD_P] <-"SD_P" }
if(METEO_SD_T == 0) { METEO_TABELLA$SD_T <- sd(METEO_TABELLA$T) }
else { names(METEO_TABELLA)[METEO_SD_T] <-"SD_T" }
#
# -------------------------------------------------------------------------------------------
# Flagging METEO Data
#
METEO_TABELLA$t_flag <- 0
METEO_TABELLA$p_flag <- 0
METEO_TABELLA$t_flag[METEO_TABELLA$T > 313.15] <- 0.456000000000
METEO_TABELLA$p_flag[METEO_TABELLA$P > 900 ] <- 0.456000000000
METEO_TABELLA$p_flag[METEO_TABELLA$P < 700 ] <- 0.456000000000
METEO_TABELLA$p_flag[METEO_TABELLA$SD_P > 1 ] <- 0.456000000000
METEO_TABELLA$t_flag[METEO_TABELLA$SD_T > 2 ] <- 0.456000000000
METEO_TABELLA$t_flag[is.na(METEO_TABELLA$T) ] <- 9.999000000000
METEO_TABELLA$T [is.na(METEO_TABELLA$T) ] <- 9999.99
METEO_TABELLA$p_flag[is.na(METEO_TABELLA$P) ] <- 9.999000000000
METEO_TABELLA$P [is.na(METEO_TABELLA$P) ] <- 9999.99
#
# -------------------------------------------------------------------------------------------
#
METEO_TABELLA$code <-gsub(" ","",paste("code",format(METEO_TABELLA$start_time,digits=5,nsmall = 5),sep="_"))
#
# -------------------------------------------------------------------------------------------
# writing METEO temporary table
#
METEO_TABELLA <-subset(METEO_TABELLA, select=c("start_time","P","p_flag","T","t_flag", "code"))
write.table(METEO_TABELLA, file=METEO_temp_FULLFILENAME,row.names=F,col.names = F, append = T, quote = F,sep=" ")
}
# -------------------------------------------------------------------------------------------
# Merging NO and CALIB Data
#
TABELLA <-read.table(EBAS_temp_FILENAME)
colnames(TABELLA) <-c("start_time","end_time","NO","NO2","NOx","Pre","Flow_sample","P_chamb","T_Cooler","T_chamber", "T_internal", "PMT_V","code")
CALIB_TABELLA <-read.table(CALIB_temp_FILENAME)
colnames(CALIB_TABELLA) <-c("start_time","Gas_conc","Gasflow_target","status","code")
METEO_TABELLA <-read.table(METEO_temp_FULLFILENAME)
colnames(METEO_TABELLA) <-c("start_time","P","p_flag","T","t_flag", "code")
#
FINAL_temp <- merge(x = TABELLA[,c("start_time","end_time","NO","NO2","NOx","Pre","Flow_sample","P_chamb","T_Cooler","T_chamber", "T_internal", "PMT_V","code")],
y = CALIB_TABELLA[,c("Gas_conc","Gasflow_target","status","code")], by = "code", all.x = TRUE)
FINAL_temp <- merge(x = FINAL_temp[,c("start_time","end_time","NO","NO2","NOx","Pre","Flow_sample","P_chamb","T_Cooler","T_chamber", "T_internal", "PMT_V","Gas_conc","Gasflow_target","status","code")],
y = METEO_TABELLA[,c("P","p_flag","T","t_flag", "code")], by = "code", all.x = TRUE)
FINAL_temp <- FINAL_temp[order(FINAL_temp$start_time),]
FINAL_temp <- FINAL_temp[,c(-1)]
#
# -------------------------------------------------------------------------------------------
# Calculating Zero / Span coefficients
#
myspanzero <-subset(FINAL_temp, status == Status_SPAN | status == Status_ZERO)
myspanzero$DATE <-as.integer(myspanzero$start_time)
cat( paste("start_time","coeff_NO","bkg_NO","coeff_NOX","bkg_NOX","NO2_L10S",sep=" "),
file=paste(L0_DIR,"temp_coef_tab.dat",sep = "/"), append=F, sep = "\n")
for (d in unique(as.numeric(myspanzero$DATE)))
{
myspanzero_d <-subset(myspanzero, DATE == d)
my_Span <-subset(myspanzero_d, myspanzero_d$status == Status_SPAN & Gasflow_target != 0)
my_Zero <-subset(myspanzero_d, myspanzero_d$status == Status_ZERO & Gasflow_target != 0)
my_Span_firstminute <-head(my_Span,1)$start_time
my_Span_lastminute <-tail(my_Span,1)$start_time
my_SpanZero_firstminute <-head(myspanzero_d,1)$start_time
my_SpanZero_lastminute <-tail(myspanzero_d,1)$start_time
#
# -------------------------------------------------------------------------------------------
# Mean of last 10 values before Span
#
my_Zero_first10 <-tail(subset(myspanzero_d, status == Status_ZERO & start_time < my_Span_firstminute & Gasflow_target == 0),10)
my_Zero_NO_Mean <-mean(my_Zero_first10$NO)
my_Zero_NO2_Mean <-mean(my_Zero_first10$NO2)
my_Zero_NOX_Mean <-mean(my_Zero_first10$NOx)
#
# -------------------------------------------------------------------------------------------
# Mean of last 10 values in status Span, before NO falldown
#
my_Span$NO_GC <-as.numeric(my_Span$Gas_conc)-as.numeric(my_Span$NO)
my_Span_falldown <-tail(subset(my_Span, my_Span$NO_GC < 0.3*my_Span$Gas_conc),11)
my_Span_falldown <-head(my_Span_falldown,10)
my_Span_falldown_NO_Mean <-mean(my_Span_falldown$NO)
my_Span_falldown_NO2_Mean <-mean(my_Span_falldown$NO2)
my_Span_falldown_NOX_Mean <-mean(my_Span_falldown$NOx)
my_Span_falldown_GC_Mean <-mean(my_Span_falldown$Gas_conc)
#
# -------------------------------------------------------------------------------------------
# Mean of last 10 values bin status Span of the series
#
my_Span_last10 <-tail(my_Span,10)
my_Span_last10_NO_Mean <-mean(my_Span_last10$NO)
my_Span_last10_NO2_Mean <-mean(my_Span_last10$NO2)
my_Span_last10_NOX_Mean <-mean(my_Span_last10$NOx)
#
# -------------------------------------------------------------------------------------------
# Writing Coefficient Table 1
#
my_coef_tab <-as.data.frame(lapply(my_SpanZero_firstminute,as.numeric))
#
my_coef_tab$coeff_NO <-my_Span_falldown_GC_Mean/my_Span_falldown_NO_Mean
my_coef_tab$bkg_NO <-my_Zero_NO_Mean
my_coef_tab$coeff_NOX <-my_Span_falldown_GC_Mean/my_Span_falldown_NOX_Mean
my_coef_tab$coeff_NOX [my_coef_tab$coeff_NOX < my_coef_tab$coeff_NO] <-my_coef_tab$coeff_NO
my_coef_tab$bkg_NOX <-my_Zero_NOX_Mean
my_coef_tab$NO2_L10S <-my_Span_last10_NO2_Mean
#
write.table(my_coef_tab, file=paste(L0_DIR,"temp_coef_tab.dat",sep = "/"),row.names=F,col.names = F, append = T, quote = F,sep=" ")
}
#
# -------------------------------------------------------------------------------------------
# Copying Coefficient values to Data table
#
COEF <-read.table(file=paste(L0_DIR,"temp_coef_tab.dat",sep = "/"), header = T,as.is = T, fill = T)
COEF <-na.omit(COEF)
#
FINAL_temp$coeff_NO <-COEF$coeff_NO [1]
FINAL_temp$bkg_NO <-COEF$bkg_NO [1]
FINAL_temp$coeff_NOX <-COEF$coeff_NOX[1]
FINAL_temp$bkg_NOX <-COEF$bkg_NOX [1]
#
# -------------------------------------------------------------------------------------------
# Copying Coefficient values to Data table
#
for (c in COEF$start_time[2:nrow(COEF)])
{
FINAL_temp$coeff_NO [as.numeric(FINAL_temp$start_time) >= as.numeric(c)] <-COEF$coeff_NO[COEF$start_time == c]
FINAL_temp$bkg_NO [as.numeric(FINAL_temp$start_time) >= as.numeric(c)] <-COEF$bkg_NO[COEF$start_time == c]
FINAL_temp$coeff_NOX[as.numeric(FINAL_temp$start_time) >= as.numeric(c)] <-COEF$coeff_NOX[COEF$start_time == c]
FINAL_temp$bkg_NOX [as.numeric(FINAL_temp$start_time) >= as.numeric(c)] <-COEF$bkg_NOX[COEF$start_time == c]
}
#
# -------------------------------------------------------------------------------------------
# Correction of NO, NO2, NOx values using coeffincient values
#
FINAL_temp$NO_elab1 <-as.numeric(FINAL_temp$NO) * as.numeric(FINAL_temp$coeff_NO) - as.numeric(FINAL_temp$bkg_NO)
FINAL_temp$NOX_elab1 <-as.numeric(FINAL_temp$NOx) * as.numeric(FINAL_temp$coeff_NOX) - as.numeric(FINAL_temp$bkg_NOX)
FINAL_temp$NO2_elab1 <-as.numeric(FINAL_temp$NOX_elab1) - as.numeric(FINAL_temp$NO_elab1)
#
# -------------------------------------------------------------------------------------------
# Calculating SC
#
cat( paste("start_time","NO2_elab1_gpt","NO_elab1_span","NO_elab1_gpt","NO2_elab1_span","NO_elab1_zero","Sc",sep=" "),
file=paste(L0_DIR,"temp_coef_tab_2.dat",sep = "/"), append=F, sep = "\n")
ELAB1_myspanzero <-subset(FINAL_temp, status == Status_SPAN | status == Status_ZERO)
ELAB1_myspanzero$DATE <-as.integer(ELAB1_myspanzero$start_time)
#
for (d in unique(as.numeric(ELAB1_myspanzero$DATE)))
{
myspanzero_d <-subset(ELAB1_myspanzero, DATE == d)
my_Span <-subset(myspanzero_d, myspanzero_d$status == Status_SPAN & Gasflow_target != 0)
my_Zero <-subset(myspanzero_d, myspanzero_d$status == Status_ZERO & Gasflow_target != 0)
my_Span_firstminute <-head(my_Span,1)$start_time
my_Span_lastminute <-tail(my_Span,1)$start_time
my_SpanZero_firstminute <-head(myspanzero_d,1)$start_time
my_SpanZero_lastminute <-tail(myspanzero_d,1)$start_time
#
# -------------------------------------------------------------------------------------------
# Mean of last 10 Zero values before Span
#
my_Zero_first10 <-tail(subset(myspanzero_d, status == Status_ZERO & start_time < my_Span_firstminute & Gasflow_target == 0),10)
my_Zero_NO_elab1_Mean <-mean(my_Zero_first10$NO_elab1)
#
# -------------------------------------------------------------------------------------------
# Mean of last 10 values in status Span, before NO falldown
#
my_Span$NO_GC <-as.numeric(my_Span$Gas_conc)-as.numeric(my_Span$NO)
my_Span_falldown <-tail(subset(my_Span, my_Span$NO_GC < 0.3*my_Span$Gas_conc),11)
my_Span_falldown <-head(my_Span_falldown,10)
my_Span_falldown_NO_elab1_Mean <-mean(my_Span_falldown$NO_elab1)
my_Span_falldown_NO2_elab1_Mean <-mean(my_Span_falldown$NO2_elab1)
#
# -------------------------------------------------------------------------------------------
# Mean of last 10 values bin status Span of the series
#
my_Span_last10_pre <-tail(my_Span,11)
my_Span_last10 <-head(my_Span_last10_pre,10)
my_Span_last10_NO2_Mean <-mean(my_Span_last10$NO2_elab1)
my_Span_last10_NO_elab1_Mean <-mean(my_Span_last10$NO_elab1)
my_Span_last10_NOX_el1_Mean <-mean(my_Span_last10$NOX_elab1)
#
# -------------------------------------------------------------------------------------------
# Copying Coefficient values to Data table
#
my_coef_tab_2 <-as.data.frame(my_SpanZero_firstminute,row.names=NULL,stringsAsFactors = FALSE)
my_coef_tab_2$my_Span_last10_NO2_Mean <-format(round(my_Span_last10_NO2_Mean , 8),nsmall = 8, scientific=FALSE)
my_coef_tab_2$falldw_NO_elab1 <-format(round(my_Span_falldown_NO_elab1_Mean , 8),nsmall = 8, scientific=FALSE)
my_coef_tab_2$last10_NO_elab1 <-format(round(my_Span_last10_NO_elab1_Mean , 8),nsmall = 8, scientific=FALSE)
my_coef_tab_2$NO2_elab1_span <-format(round(as.numeric(my_Span_falldown_NO2_elab1_Mean) , 8),nsmall = 8, scientific=FALSE)
my_coef_tab_2$NO_elab1_zero <-format(round(as.numeric(my_Zero_NO_elab1_Mean), 8),nsmall = 8, scientific=FALSE)
my_coef_tab_2$Sc <-(my_Span_last10_NO2_Mean)/((my_Span_falldown_NO_elab1_Mean) - (my_Span_last10_NO_elab1_Mean))
#
# -------------------------------------------------------------------------------------------
# Setting the proper output format
#
my_coef_tab_2 <-as.data.frame(lapply(na.omit(my_coef_tab_2),as.numeric))
my_coef_tab_2 <-subset(my_coef_tab_2, my_coef_tab_2$Sc < 1)
write.table(my_coef_tab_2, file=paste(L0_DIR,"temp_coef_tab_2.dat",sep = "/"),row.names=F,col.names = F, append = T, quote = F,sep=" ")
}
COEF_1 <-read.table(file=paste(L0_DIR,"temp_coef_tab_2.dat",sep = "/"), header = T,as.is = T, fill = T)
FINAL_temp$Sc <-COEF_1$Sc[1]
for (c in COEF_1$start_time[2:nrow(COEF_1)])
{
FINAL_temp$Sc[as.numeric(FINAL_temp$start_time) >= as.numeric(c)] <-COEF_1$Sc[COEF_1$start_time == c]
}
FINAL_temp$NO2_elab2 <-as.numeric(FINAL_temp$NO2_elab1) / FINAL_temp$Sc
FINAL_temp$NOX_elab2 <-FINAL_temp$NO_elab1 + FINAL_temp$NO2_elab2
#
# -------------------------------------------------------------------------------------------
# Calculating the final NO value
#
cat( paste("start_time","NO2_elab2_span","NOX_elab2_span","NOX_elab2_gpt","NO2_elab2_zero",sep=" "),
file=paste(L0_DIR,"temp_coef_tab_3.dat",sep = "/"), append=F, sep = "\n")
ELAB2_myspanzero <-subset(FINAL_temp, status == Status_SPAN | status == Status_ZERO)
ELAB2_myspanzero$DATE <-as.integer(ELAB2_myspanzero$start_time)
for (d in unique(as.numeric(ELAB2_myspanzero$DATE))){
myspanzero_d <-subset(ELAB2_myspanzero, DATE == d)
my_Span <-subset(myspanzero_d, myspanzero_d$status == Status_SPAN & Gasflow_target != 0)
my_Zero <-subset(myspanzero_d, myspanzero_d$status == Status_ZERO & Gasflow_target != 0)
my_Span_firstminute <-head(my_Span,1)$start_time
my_Span_lastminute <-tail(my_Span,1)$start_time
my_SpanZero_firstminute <-head(myspanzero_d,1)$start_time
my_SpanZero_lastminute <-tail(myspanzero_d,1)$start_time
#
# -------------------------------------------------------------------------------------------
# Mean of last 10 Zero values before Span
#
my_Zero_first10 <-tail(subset(myspanzero_d, status == Status_ZERO & start_time < my_Span_firstminute & Gasflow_target == 0),10)
my_Zero_NO2_elab2_Mean <-mean(my_Zero_first10$NO2_elab2)
#
# -------------------------------------------------------------------------------------------
# Mean of last 10 values in status Span, before NO falldown
#
my_Span$NO_GC <-as.numeric(my_Span$Gas_conc)-as.numeric(my_Span$NO)
my_Span_falldown <-tail(subset(my_Span, my_Span$NO_GC < 0.3*my_Span$Gas_conc),11)
my_Span_falldown <-head(my_Span_falldown,10)
my_NO2_elab2_span <-mean(my_Span_falldown$NO2_elab2)
my_NOX_elab2_span <-mean(my_Span_falldown$NOX_elab2)
#
# -------------------------------------------------------------------------------------------