cleanFlux: Cleaning eddy covariane flux measurements
In domvit81/RFlux: Eddy Covariance Flux Data Processing
Description
Usage
Arguments
Details
Value
Author(s)
References
Examples
Description
This is the main function of the RFlux library. It performs the data cleaning procedure described by Vitale et al (2019).
Usage
1
2
Arguments
path_workset
path where the workset file generated from function ecworkset is stored.
path_ecmd
path where the eddy covariance metadata file (CC-xxx_ecmd.csv) is stored.
path_output
path where the output file will be stored. Default is NULL.
FileName
file name for the output file. Deafult is NULL.
plotQC
Logical. Should the details of data cleaning procedure be saved. If TRUE two .jpeg files (Details and Synthesis) for each flux variables will be stored in the path specified by path_output. Default is FALSE.
storage
Logical. Should the Net Ecosystem Exchange flux take into account the CO2 storage term. Default is FALSE.
Details
Comparing statistics estimated by qcStat with two threshold values, each test returns one of 3 possible statements:
- SevEr:
if the test provides strong evidence about the presence of a specific source of systematic error.
- ModEr:
if the test provides only weak evidence about the presence of a specific source of systematic error.
- NoEr:
if the test does not provide evidence about the presence of a specific source of systematic error.
The data cleaning is based on a two-step procedure. In the first stage, fluxes that inherited at least one SevEr statement are rejected, while fluxes that inherited no SevEr statements and any number of ModEr statements are retained. In the second stage, flux data that inherited no SevEr statement are subject to an outlier detection procedure and only flux data that are both detected as outlier and inherited at least a ModEr statement are conclusively rejected. This implies that data points that inherited any number of ModEr statements but were not detected to be outliers, as well as outliers which showed no evidence of systematic errors, are retained in the dataset and can be used for any analysis or modeling purposes.
Value
Returns a dataframe containing:
TIMESTAMP_START
ISO timestamp start of averaging period (format: yyyymmddHHMM).
TIMESTAMP_END
ISO timestamp end of averaging period (format: yyyymmddHHMM).
H_UNCLEANED
Sensible heat turbulent flux (no storage correction, uncleaned).
H
Sensible heat turbulent flux (no storage correction, cleaned).
H_DATA_FLAG
Flag for H (0: observed flux for which any quality control (QC) tests provided negligible evidences of error; 1: outlying flux rejected because at least one of the QC tests provided a moderate evidence of error; 2: flux removed because at least one of the QC test provided a severe evidence of error).
LE_UNCLEANED
Latent heat turbulent flux (no storage correction, uncleaned).
LE
Latent heat turbulent flux (no storage correction, cleaned).
LE_DATA_FLAG
Flag for LE (0: observed flux for which any quality control (QC) tests provided negligible evidences of error; 1: outlying flux rejected because at least one of the QC tests provided a moderate evidence of error; 2: flux removed because at least one of the QC test provided a severe evidence of error).
FC
Carbon Dioxide (CO2) turbulent flux (no storage correction).
SC
Carbon Dioxide (CO2) storage flux.
NEE_UNCLEANED
Net Ecosystem Exchange (uncleaned).
NEE
Net Ecosystem Exchange (cleaned).
NEE_DATA_FLAG
Flag for NEE (i.e., 0: observed flux for which any quality control (QC) tests provided negligible evidences of error; 1: outlying flux rejected because at least one of the QC tests provided a moderate evidence of error; 2: flux removed because at least one of the QC test provided a severe evidence of error).
H_OUTLYING_FLAG
Flag for H denoting outliers (0: no outlying flux; 1: outlying flux).
LE_OUTLYING_FLAG
Flag for LE denoting outliers (0: no outlying flux; 1: outlying flux).
NEE_OUTLYING_FLAG
Flag for NEE denoting outliers (0: no outlying flux; 1: outlying flux).
H_FMR_STAT
Fraction of Missing Records in raw, high-frequency, data used for H flux estimation.
H_FMR_FLAG
Flag for the FMR test for H (0: negligible evidences of error, IF FMR<5; 1: moderate evidences of error, 1 IF 5≤FMR≤15; 2: severe evidences of error, 2 IF FMR>15).
H_LGD_STAT
Longest Gap Duration in raw, high-frequency, data used for H flux estimation.
H_LGD_FLAG
Flag for the LGD test for H (0: negligible evidences of error, IF LGD<90; 1: moderate evidences of error, IF 90≤LGD≤180; 2: severe evidences of error, IF LGD>180).
LE_FMR_STAT
Fraction of Missing Records in raw, high-frequency, data used for LE flux estimation.
LE_FMR_FLAG
Flag for the FMR test for LE (0: negligible evidences of error, IF FMR<5; 1, moderate evidences of error, IF 5≤FMR≤15; 2, severe evidences of error, IF FMR>15).
LE_LGD_STAT
Longest Gap Duration in raw, high-frequency, data used for LE flux estimation.
LE_LGD_FLAG
Flag for the LGD test for LE (0: negligible evidences of error, IF LGD<90; 1: moderate evidences of error, IF 90≤LGD≤180; 2: severe evidences of error, IF LGD>180).
FC_FMR_STAT
Fraction of Missing Records in raw, high-frequency, data used for FC flux estimation.
FC_FMR_FLAG
Flag for the FMR test for FC (0: negligible evidences of error, IF FMR<5; 1: moderate evidences of error, IF 5≤FMR≤15; 2: severe evidences of error, IF FMR>15).
FC_LGD_STAT
Longest Gap Duration in raw, high-frequency, data used for FC flux estimation.
FC_LGD_FLAG
Flag for the LGD test for FC (0: negligible evidences of error, IF LGD<90; 1: moderate evidences of error, IF 90≤LGD≤180; 2: severe evidences of error, IF LGD>180).
SA_DIAG_FLAG
Flag for Sonic Anemometer (SA) instrumental diagnostics (0: negligible evidences of error; 2: severe evidences of error).
GA_DIAG_FLAG
Flag for gas analyzer (GA) instrumental diagnostics (0: negligible evidences of error; 2: severe evidences of error).
WD
Wind direction.
WSECT_FLAG
Footprint quality flag indicating periods when wind was blowing from directions known to significantly affect the turbulent flow (0: negligible evidences of error; 2: severe evidences of error).
H_LSR_STAT
Statistic of the Low Signal Resolution test for H.
H_LSR_FLAG
Flag for the LSR test for H (0: negligible evidences of error, IF LSR_STAT>0.995; 1: moderate evidences of error, IF 0.99≤LSR_STAT≤0.995; 2: severe evidences of error, IF LSR_STAT<0.99).
LE_LSR_STAT
Statistic of the Low Signal Resolution test for LE.
LE_LSR_FLAG
Flag for the LSR test for LE (0: negligible evidences of error, IF LSR_STAT>0.995; 1: moderate evidences of error, IF 0.99≤LSR_STAT≤0.995; 2: severe evidences of error, IF LSR_STAT<0.99).
FC_LSR_STAT
Statistic of the Low Signal Resolution test for FC.
FC_LSR_FLAG
Flag for the LSR test for FC (0: negligible evidences of error, IF LSR_STAT>0.995; 1: moderate evidences of error, IF 0.99 ≤LSR_STAT≤0.995; 2: severe evidences of error, IF LSR_STAT<0.99).
W_HF5_STAT
Statistic of the homogeneity test applied on vertical wind velocity fluctuations (percentage of data exceeding μ+/-5σ).
W_HF5_FLAG
Flag for the homogeneity test applied on vertical wind velocity fluctuations (0: negligible evidences of error, IF HF5_STAT<2; 1: moderate evidences of error, IF 2≤HF5_STAT≤4; 2: severe evidences of error, IF HF5_STAT>4).
W_HF10_STAT
Statistic of the homogeneity test applied on vertical wind velocity fluctuations (percentage of data exceeding μ+/-10σ).
W_HF10_FLAG
Flag for the homogeneity test applied on vertical wind velocity fluctuations (0: negligible evidences of error, IF HF10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HF10_STAT≤1; 2: severe evidences of error, IF HF10_STAT>1).
W_HD5_STAT
Statistic of the homogeneity test applied on differenced vertical wind velocity (percentage of data exceeding μ+/-5σ).
W_HD5_FLAG
Flag for the homogeneity test applied on differenced vertical wind velocity (0: negligible evidences of error, IF HD5_STAT<2; 1: moderate evidences of error, IF 2≤HD5_STAT≤4; 2: severe evidences of error, IF HD5_STAT>4).
W_HD10_STAT
Statistic of the homogeneity test applied on differenced vertical wind velocity (percentage of data exceeding μ+/-10σ).
W_HD10_FLAG
Flag for the homogeneity test applied on differenced vertical wind velocity (0: negligible evidences of error, IF HD10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HD10_STAT≤1; 2: severe evidences of error, IF HD10_STAT>1).
T_SONIC_HF5_STAT
Statistic of the homogeneity test applied on sonic temperature fluctuations (percentage of data exceeding μ+/-5σ).
T_SONIC_HF5_FLAG
Flag for the homogeneity test applied on sonic temperature fluctuations (0: negligible evidences of error, IF HF5_STAT<2; 1: moderate evidences of error, IF 2≤HF5_STAT≤4; 2: severe evidences of error, IF HF5_STAT>4).
T_SONIC_HF10_STAT
Statistic of the homogeneity test applied on sonic temperature fluctuations (percentage of data exceeding μ+/-10σ).
T_SONIC_HF10_FLAG
Flag for the homogeneity test applied on sonic temperature fluctuations (0: negligible evidences of error, IF HF10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HF10_STAT≤1; 2: severe evidences of error, IF HF10_STAT>1).
T_SONIC_HD5_STAT
Statistic of the homogeneity test applied on differenced sonic temperature (percentage of data exceeding μ+/-5σ).
T_SONIC_HD5_FLAG
Flag for the homogeneity test applied on differenced sonic temperature (0: negligible evidences of error, IF HD5_STAT<2; 1: moderate evidences of error, IF 2≤HD5_STAT≤4; 2: severe evidences of error, IF HD5_STAT>4).
T_SONIC_HD10_STAT
Statistic of the homogeneity test applied on differenced sonic temperature (percentage of data exceeding μ+/-10σ).
T_SONIC_HD10_FLAG
Flag for the homogeneity test applied on differenced sonic temperature (0: negligible evidences of error, IF HD10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HD10_STAT≤1; 2: severe evidences of error, IF HD10_STAT>1).
H2O_HF5_STAT
Statistic of the homogeneity test applied on water vapor fluctuations (percentage of data exceeding μ+/-5σ).
H2O_HF5_FLAG
Flag for the homogeneity test applied on water vapor fluctuations (0: negligible evidences of error, IF HF5_STAT<2; 1: moderate evidences of error, IF 2≤HF5_STAT≤4; 2: severe evidences of error, IF HF5_STAT>4).
H2O_HF10_STAT
Statistic of the homogeneity test applied on water vapor fluctuations (percentage of data exceeding μ+/-10σ).
H2O_HF10_FLAG
Flag for the homogeneity test applied on water vapor fluctuations (0: negligible evidences of error, IF HF10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HF10_STAT≤1; 2: severe evidences of error, IF HF10_STAT>1).
H2O_HD5_STAT
Statistic of the homogeneity test applied on differenced water vapor (percentage of data exceeding μ+/-5σ).
H2O_HD5_FLAG
Flag for the homogeneity test applied on differenced water vapor (0: negligible evidences of error, IF HD5_STAT<2; 1: moderate evidences of error, IF 2≤HD5_STAT≤4; 2: severe evidences of error, IF HD5_STAT>4).
H2O_HD10_STAT
Statistic of the homogeneity test applied on differenced water vapor (percentage of data exceeding μ+/-10σ).
H2O_HD10_FLAG
Flag for the homogeneity test applied on differenced water vapor (0: negligible evidences of error, IF HD10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HD10_STAT≤1; 2: severe evidences of error, IF HD10_STAT>1).
CO2_HF5_STAT
Statistic of the homogeneity test applied on carbon dioxide fluctuations (percentage of data exceeding μ+/-5σ).
CO2_HF5_FLAG
Flag for the homogeneity test applied on carbon dioxide fluctuations (0: negligible evidences of error, IF HF5_STAT<2; 1: moderate evidences of error, IF 2≤HF5_STAT≤4; 2: severe evidences of error, IF HF5_STAT>4).
CO2_HF10_STAT
Statistic of the homogeneity test applied on carbon dioxide fluctuations (percentage of data exceeding μ+/-10σ).
CO2_HF10_FLAG
Flag for the homogeneity test applied on carbon dioxide fluctuations (0: negligible evidences of error, IF HF10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HF10_STAT≤1; 2: severe evidences of error, IF HF10_STAT>1).
CO2_HD5_STAT
Statistic of the homogeneity test applied on differenced carbon dioxide (percentage of data exceeding μ+/-5σ).
CO2_HD5_FLAG
Flag for the homogeneity test applied on differenced carbon dioxide (0: negligible evidences of error, IF HD5_STAT<2; 1: moderate evidences of error, IF 2≤HD5_STAT≤4; 2: severe evidences of error, IF HD5_STAT>4).
CO2_HD10_STAT
Statistic of the homogeneity test applied on differenced carbon dioxide (percentage of data exceeding μ+/-10σ).
CO2_HD10_FLAG
Flag for the homogeneity test applied on differenced carbon dioxide (0: negligible evidences of error, IF HD10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HD10_STAT≤1; 2: severe evidences of error, IF HD10_STAT>1).
W_KID_STAT
Kurtosis Index of Differenced vertical wind velocity.
W_KID_FLAG
Flag for the W_KID_STAT (0: negligible evidences of error, IF KID_STAT<30; 1: moderate evidences of error, IF 30≤KID_STAT≤50; 2: severe evidences of error, IF KID_STAT>50).
T_SONIC_KID_STAT
Kurtosis Index of Differenced sonic temperature.
T_SONIC_KID_FLAG
Flag for the T_SONIC_KID_STAT (0: negligible evidences of error, IF KID_STAT<30; 1: moderate evidences of error, IF 30≤KID_STAT≤50; 2: severe evidences of error, IF KID_STAT>50).
H2O_KID_STAT
Kurtosis Index of Differenced water vapor.
H2O_KID_FLAG
Flag for the H2O_KID_STAT (0: negligible evidences of error, IF KID_STAT<30; 1: moderate evidences of error, IF 30≤KID_STAT≤50; 2: severe evidences of error, IF KID_STAT>50).
CO2_KID_STAT
Kurtosis Index of Differenced carbon dioxide.
CO2_KID_FLAG
Flag for the CO2_KID_STAT (0: negligible evidences of error, IF KID_STAT<30; 1: moderate evidences of error, IF 30≤KID_STAT≤50; 2: severe evidences of error, IF KID_STAT>50).
ITC_STAT
Statistic of the Integral Turbulence Characteristics test (Foken and Wichura, 1996).
ITC_FLAG
Flag for the ITC test (0: negligible evidences of error, IF ITC_STAT<30; 1: moderate evidences of error, IF 30≤ITC_STAT≤50; 2: severe evidences of error, IF ITC_STAT>50).
H_SCF_STAT
Spectral correction factor for H.
LE_SCF_STAT
Spectral correction factor for LE.
FC_SCF_STAT
Spectral correction factor for FC.
H_M98_STAT
Statistic of the nonstationarity ratio test by Mahrt (1998) for H.
H_M98_FLAG
Flag of the H_M98_STAT (0: negligible evidences of error, IF M_98_STAT<2; 1: moderate evidences of error, IF 2≤M98_STAT≤3; 2: severe evidences of error, IF M98_STAT>3).
LE_M98_STAT
Statistic of the nonstationarity ratio test by Mahrt (1998) for LE.
LE_M98_FLAG
Flag of the LE_M98_STAT (0: negligible evidences of error, IF M_98_STAT<2; 1: moderate evidences of error, IF 2≤M98_STAT≤3; 2: severe evidences of error, IF M98_STAT>3).
FC_M98_STAT
Statistic of the nonstationarity ratio test by Mahrt (1998) for FC.
FC_M98_FLAG
Flag of the FC_M98_STAT (0: negligible evidences of error, IF M_98_STAT<2; 1: moderate evidences of error, IF 2≤M98_STAT≤3; 2: severe evidences of error, IF M98_STAT>3).
CO2
Carbon Dioxide (CO2) in mole fraction of wet air.
CO2_SIGMA
Standard deviation of carbon dioxide in mole fraction of wet air.
H2O
Water (H2O) vapor mole fraction.
H2O_SIGMA
Standard deviation of water vapor mole fraction.
T_SONIC
Sonic temperature.
T_SONIC_SIGMA
Standard deviation of sonic temperature.
WS
Wind speed.
USTAR
Friction velocity.
W_SIGMA
Standard deviation of vertical velocity fluctuations.
U_SIGMA
Standard deviation of lateral velocity fluctuations (towards main-wind direction after coordinates rotation).
V_SIGMA
Standard deviation of lateral velocity fluctuations (cross main-wind direction after coordinates rotation).
ZL
Monin-Obukhov stability parameter.
MO_LENGTH
Monin-Obukhov length.
AT
Air temperature.
AP
Air pressure.
RHO
Air density.
CP
Air heat capacity.
CANOPY_HEIGHT
Canopy height.
SA_HEIGHT
Sonic anemometer height.
SA_NORTH_OFFSET
Sonic anemometer north offset.
INVALID_WIND_SECTOR_c1
Center of the first invalid wind sector, if any.
INVALID_WIND_SECTOR_w1
Width of the first invalid wind sector, if any.
INVALID_WIND_SECTOR_c2
Center of the second invalid wind sector, if any.
INVALID_WIND_SECTOR_w2
Width of the second invalid wind sector, if any.
INVALID_WIND_SECTOR_c3
Center of the third invalid wind sector, if any.
INVALID_WIND_SECTOR_w3
Width of the third invalid wind sector, if any.
Author(s)
Domenico Vitale
References
Vitale, D. Fratini, G. Bilancia, M. Nicolini, G. Sabbatini, S. Papale, D.
A robust data cleaning procedure for eddy covariance flux measurements,
Biogeosciences Discussions, 2019, pp 1-36, doi: https://doi.org/10.5194/bg-2019-270.
Examples
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PATH_WORKSET <- system.file("extdata", "ecworkset_example.csv", package = "RFlux")
PATH_ECMD <- system.file("extdata", "DE-HoH_ecmd.csv", package = "RFlux")
cleanset <- cleanFlux(path_workset=PATH_WORKSET,
path_ecmd=PATH_ECMD,
path_output=NULL,
FileName=NULL,
plotQC=FALSE,
storage=TRUE)
str(cleanset)
domvit81/RFlux documentation built on Nov. 20, 2019, 8:02 a.m.
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Description Usage Arguments Details Value Author(s) References Examples
Description
This is the main function of the RFlux library. It performs the data cleaning procedure described by Vitale et al (2019).
Usage
1 2 |
Arguments
path_workset |
path where the workset file generated from function |
path_ecmd |
path where the eddy covariance metadata file (CC-xxx_ecmd.csv) is stored. |
path_output |
path where the output file will be stored. Default is NULL. |
FileName |
file name for the output file. Deafult is NULL. |
plotQC |
Logical. Should the details of data cleaning procedure be saved. If TRUE two .jpeg files (Details and Synthesis) for each flux variables will be stored in the path specified by path_output. Default is FALSE. |
storage |
Logical. Should the Net Ecosystem Exchange flux take into account the CO2 storage term. Default is FALSE. |
Details
Comparing statistics estimated by qcStat with two threshold values, each test returns one of 3 possible statements:
- SevEr:
if the test provides strong evidence about the presence of a specific source of systematic error.
- ModEr:
if the test provides only weak evidence about the presence of a specific source of systematic error.
- NoEr:
if the test does not provide evidence about the presence of a specific source of systematic error.
The data cleaning is based on a two-step procedure. In the first stage, fluxes that inherited at least one SevEr statement are rejected, while fluxes that inherited no SevEr statements and any number of ModEr statements are retained. In the second stage, flux data that inherited no SevEr statement are subject to an outlier detection procedure and only flux data that are both detected as outlier and inherited at least a ModEr statement are conclusively rejected. This implies that data points that inherited any number of ModEr statements but were not detected to be outliers, as well as outliers which showed no evidence of systematic errors, are retained in the dataset and can be used for any analysis or modeling purposes.
Value
Returns a dataframe containing:
TIMESTAMP_START |
ISO timestamp start of averaging period (format: yyyymmddHHMM). |
TIMESTAMP_END |
ISO timestamp end of averaging period (format: yyyymmddHHMM). |
H_UNCLEANED |
Sensible heat turbulent flux (no storage correction, uncleaned). |
H |
Sensible heat turbulent flux (no storage correction, cleaned). |
H_DATA_FLAG |
Flag for H (0: observed flux for which any quality control (QC) tests provided negligible evidences of error; 1: outlying flux rejected because at least one of the QC tests provided a moderate evidence of error; 2: flux removed because at least one of the QC test provided a severe evidence of error). |
LE_UNCLEANED |
Latent heat turbulent flux (no storage correction, uncleaned). |
LE |
Latent heat turbulent flux (no storage correction, cleaned). |
LE_DATA_FLAG |
Flag for LE (0: observed flux for which any quality control (QC) tests provided negligible evidences of error; 1: outlying flux rejected because at least one of the QC tests provided a moderate evidence of error; 2: flux removed because at least one of the QC test provided a severe evidence of error). |
FC |
Carbon Dioxide (CO2) turbulent flux (no storage correction). |
SC |
Carbon Dioxide (CO2) storage flux. |
NEE_UNCLEANED |
Net Ecosystem Exchange (uncleaned). |
NEE |
Net Ecosystem Exchange (cleaned). |
NEE_DATA_FLAG |
Flag for NEE (i.e., 0: observed flux for which any quality control (QC) tests provided negligible evidences of error; 1: outlying flux rejected because at least one of the QC tests provided a moderate evidence of error; 2: flux removed because at least one of the QC test provided a severe evidence of error). |
H_OUTLYING_FLAG |
Flag for H denoting outliers (0: no outlying flux; 1: outlying flux). |
LE_OUTLYING_FLAG |
Flag for LE denoting outliers (0: no outlying flux; 1: outlying flux). |
NEE_OUTLYING_FLAG |
Flag for NEE denoting outliers (0: no outlying flux; 1: outlying flux). |
H_FMR_STAT |
Fraction of Missing Records in raw, high-frequency, data used for H flux estimation. |
H_FMR_FLAG |
Flag for the FMR test for H (0: negligible evidences of error, IF FMR<5; 1: moderate evidences of error, 1 IF 5≤FMR≤15; 2: severe evidences of error, 2 IF FMR>15). |
H_LGD_STAT |
Longest Gap Duration in raw, high-frequency, data used for H flux estimation. |
H_LGD_FLAG |
Flag for the LGD test for H (0: negligible evidences of error, IF LGD<90; 1: moderate evidences of error, IF 90≤LGD≤180; 2: severe evidences of error, IF LGD>180). |
LE_FMR_STAT |
Fraction of Missing Records in raw, high-frequency, data used for LE flux estimation. |
LE_FMR_FLAG |
Flag for the FMR test for LE (0: negligible evidences of error, IF FMR<5; 1, moderate evidences of error, IF 5≤FMR≤15; 2, severe evidences of error, IF FMR>15). |
LE_LGD_STAT |
Longest Gap Duration in raw, high-frequency, data used for LE flux estimation. |
LE_LGD_FLAG |
Flag for the LGD test for LE (0: negligible evidences of error, IF LGD<90; 1: moderate evidences of error, IF 90≤LGD≤180; 2: severe evidences of error, IF LGD>180). |
FC_FMR_STAT |
Fraction of Missing Records in raw, high-frequency, data used for FC flux estimation. |
FC_FMR_FLAG |
Flag for the FMR test for FC (0: negligible evidences of error, IF FMR<5; 1: moderate evidences of error, IF 5≤FMR≤15; 2: severe evidences of error, IF FMR>15). |
FC_LGD_STAT |
Longest Gap Duration in raw, high-frequency, data used for FC flux estimation. |
FC_LGD_FLAG |
Flag for the LGD test for FC (0: negligible evidences of error, IF LGD<90; 1: moderate evidences of error, IF 90≤LGD≤180; 2: severe evidences of error, IF LGD>180). |
SA_DIAG_FLAG |
Flag for Sonic Anemometer (SA) instrumental diagnostics (0: negligible evidences of error; 2: severe evidences of error). |
GA_DIAG_FLAG |
Flag for gas analyzer (GA) instrumental diagnostics (0: negligible evidences of error; 2: severe evidences of error). |
WD |
Wind direction. |
WSECT_FLAG |
Footprint quality flag indicating periods when wind was blowing from directions known to significantly affect the turbulent flow (0: negligible evidences of error; 2: severe evidences of error). |
H_LSR_STAT |
Statistic of the Low Signal Resolution test for H. |
H_LSR_FLAG |
Flag for the LSR test for H (0: negligible evidences of error, IF LSR_STAT>0.995; 1: moderate evidences of error, IF 0.99≤LSR_STAT≤0.995; 2: severe evidences of error, IF LSR_STAT<0.99). |
LE_LSR_STAT |
Statistic of the Low Signal Resolution test for LE. |
LE_LSR_FLAG |
Flag for the LSR test for LE (0: negligible evidences of error, IF LSR_STAT>0.995; 1: moderate evidences of error, IF 0.99≤LSR_STAT≤0.995; 2: severe evidences of error, IF LSR_STAT<0.99). |
FC_LSR_STAT |
Statistic of the Low Signal Resolution test for FC. |
FC_LSR_FLAG |
Flag for the LSR test for FC (0: negligible evidences of error, IF LSR_STAT>0.995; 1: moderate evidences of error, IF 0.99 ≤LSR_STAT≤0.995; 2: severe evidences of error, IF LSR_STAT<0.99). |
W_HF5_STAT |
Statistic of the homogeneity test applied on vertical wind velocity fluctuations (percentage of data exceeding μ+/-5σ). |
W_HF5_FLAG |
Flag for the homogeneity test applied on vertical wind velocity fluctuations (0: negligible evidences of error, IF HF5_STAT<2; 1: moderate evidences of error, IF 2≤HF5_STAT≤4; 2: severe evidences of error, IF HF5_STAT>4). |
W_HF10_STAT |
Statistic of the homogeneity test applied on vertical wind velocity fluctuations (percentage of data exceeding μ+/-10σ). |
W_HF10_FLAG |
Flag for the homogeneity test applied on vertical wind velocity fluctuations (0: negligible evidences of error, IF HF10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HF10_STAT≤1; 2: severe evidences of error, IF HF10_STAT>1). |
W_HD5_STAT |
Statistic of the homogeneity test applied on differenced vertical wind velocity (percentage of data exceeding μ+/-5σ). |
W_HD5_FLAG |
Flag for the homogeneity test applied on differenced vertical wind velocity (0: negligible evidences of error, IF HD5_STAT<2; 1: moderate evidences of error, IF 2≤HD5_STAT≤4; 2: severe evidences of error, IF HD5_STAT>4). |
W_HD10_STAT |
Statistic of the homogeneity test applied on differenced vertical wind velocity (percentage of data exceeding μ+/-10σ). |
W_HD10_FLAG |
Flag for the homogeneity test applied on differenced vertical wind velocity (0: negligible evidences of error, IF HD10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HD10_STAT≤1; 2: severe evidences of error, IF HD10_STAT>1). |
T_SONIC_HF5_STAT |
Statistic of the homogeneity test applied on sonic temperature fluctuations (percentage of data exceeding μ+/-5σ). |
T_SONIC_HF5_FLAG |
Flag for the homogeneity test applied on sonic temperature fluctuations (0: negligible evidences of error, IF HF5_STAT<2; 1: moderate evidences of error, IF 2≤HF5_STAT≤4; 2: severe evidences of error, IF HF5_STAT>4). |
T_SONIC_HF10_STAT |
Statistic of the homogeneity test applied on sonic temperature fluctuations (percentage of data exceeding μ+/-10σ). |
T_SONIC_HF10_FLAG |
Flag for the homogeneity test applied on sonic temperature fluctuations (0: negligible evidences of error, IF HF10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HF10_STAT≤1; 2: severe evidences of error, IF HF10_STAT>1). |
T_SONIC_HD5_STAT |
Statistic of the homogeneity test applied on differenced sonic temperature (percentage of data exceeding μ+/-5σ). |
T_SONIC_HD5_FLAG |
Flag for the homogeneity test applied on differenced sonic temperature (0: negligible evidences of error, IF HD5_STAT<2; 1: moderate evidences of error, IF 2≤HD5_STAT≤4; 2: severe evidences of error, IF HD5_STAT>4). |
T_SONIC_HD10_STAT |
Statistic of the homogeneity test applied on differenced sonic temperature (percentage of data exceeding μ+/-10σ). |
T_SONIC_HD10_FLAG |
Flag for the homogeneity test applied on differenced sonic temperature (0: negligible evidences of error, IF HD10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HD10_STAT≤1; 2: severe evidences of error, IF HD10_STAT>1). |
H2O_HF5_STAT |
Statistic of the homogeneity test applied on water vapor fluctuations (percentage of data exceeding μ+/-5σ). |
H2O_HF5_FLAG |
Flag for the homogeneity test applied on water vapor fluctuations (0: negligible evidences of error, IF HF5_STAT<2; 1: moderate evidences of error, IF 2≤HF5_STAT≤4; 2: severe evidences of error, IF HF5_STAT>4). |
H2O_HF10_STAT |
Statistic of the homogeneity test applied on water vapor fluctuations (percentage of data exceeding μ+/-10σ). |
H2O_HF10_FLAG |
Flag for the homogeneity test applied on water vapor fluctuations (0: negligible evidences of error, IF HF10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HF10_STAT≤1; 2: severe evidences of error, IF HF10_STAT>1). |
H2O_HD5_STAT |
Statistic of the homogeneity test applied on differenced water vapor (percentage of data exceeding μ+/-5σ). |
H2O_HD5_FLAG |
Flag for the homogeneity test applied on differenced water vapor (0: negligible evidences of error, IF HD5_STAT<2; 1: moderate evidences of error, IF 2≤HD5_STAT≤4; 2: severe evidences of error, IF HD5_STAT>4). |
H2O_HD10_STAT |
Statistic of the homogeneity test applied on differenced water vapor (percentage of data exceeding μ+/-10σ). |
H2O_HD10_FLAG |
Flag for the homogeneity test applied on differenced water vapor (0: negligible evidences of error, IF HD10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HD10_STAT≤1; 2: severe evidences of error, IF HD10_STAT>1). |
CO2_HF5_STAT |
Statistic of the homogeneity test applied on carbon dioxide fluctuations (percentage of data exceeding μ+/-5σ). |
CO2_HF5_FLAG |
Flag for the homogeneity test applied on carbon dioxide fluctuations (0: negligible evidences of error, IF HF5_STAT<2; 1: moderate evidences of error, IF 2≤HF5_STAT≤4; 2: severe evidences of error, IF HF5_STAT>4). |
CO2_HF10_STAT |
Statistic of the homogeneity test applied on carbon dioxide fluctuations (percentage of data exceeding μ+/-10σ). |
CO2_HF10_FLAG |
Flag for the homogeneity test applied on carbon dioxide fluctuations (0: negligible evidences of error, IF HF10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HF10_STAT≤1; 2: severe evidences of error, IF HF10_STAT>1). |
CO2_HD5_STAT |
Statistic of the homogeneity test applied on differenced carbon dioxide (percentage of data exceeding μ+/-5σ). |
CO2_HD5_FLAG |
Flag for the homogeneity test applied on differenced carbon dioxide (0: negligible evidences of error, IF HD5_STAT<2; 1: moderate evidences of error, IF 2≤HD5_STAT≤4; 2: severe evidences of error, IF HD5_STAT>4). |
CO2_HD10_STAT |
Statistic of the homogeneity test applied on differenced carbon dioxide (percentage of data exceeding μ+/-10σ). |
CO2_HD10_FLAG |
Flag for the homogeneity test applied on differenced carbon dioxide (0: negligible evidences of error, IF HD10_STAT<0.5; 1: moderate evidences of error, IF 0.5≤HD10_STAT≤1; 2: severe evidences of error, IF HD10_STAT>1). |
W_KID_STAT |
Kurtosis Index of Differenced vertical wind velocity. |
W_KID_FLAG |
Flag for the W_KID_STAT (0: negligible evidences of error, IF KID_STAT<30; 1: moderate evidences of error, IF 30≤KID_STAT≤50; 2: severe evidences of error, IF KID_STAT>50). |
T_SONIC_KID_STAT |
Kurtosis Index of Differenced sonic temperature. |
T_SONIC_KID_FLAG |
Flag for the T_SONIC_KID_STAT (0: negligible evidences of error, IF KID_STAT<30; 1: moderate evidences of error, IF 30≤KID_STAT≤50; 2: severe evidences of error, IF KID_STAT>50). |
H2O_KID_STAT |
Kurtosis Index of Differenced water vapor. |
H2O_KID_FLAG |
Flag for the H2O_KID_STAT (0: negligible evidences of error, IF KID_STAT<30; 1: moderate evidences of error, IF 30≤KID_STAT≤50; 2: severe evidences of error, IF KID_STAT>50). |
CO2_KID_STAT |
Kurtosis Index of Differenced carbon dioxide. |
CO2_KID_FLAG |
Flag for the CO2_KID_STAT (0: negligible evidences of error, IF KID_STAT<30; 1: moderate evidences of error, IF 30≤KID_STAT≤50; 2: severe evidences of error, IF KID_STAT>50). |
ITC_STAT |
Statistic of the Integral Turbulence Characteristics test (Foken and Wichura, 1996). |
ITC_FLAG |
Flag for the ITC test (0: negligible evidences of error, IF ITC_STAT<30; 1: moderate evidences of error, IF 30≤ITC_STAT≤50; 2: severe evidences of error, IF ITC_STAT>50). |
H_SCF_STAT |
Spectral correction factor for H. |
LE_SCF_STAT |
Spectral correction factor for LE. |
FC_SCF_STAT |
Spectral correction factor for FC. |
H_M98_STAT |
Statistic of the nonstationarity ratio test by Mahrt (1998) for H. |
H_M98_FLAG |
Flag of the H_M98_STAT (0: negligible evidences of error, IF M_98_STAT<2; 1: moderate evidences of error, IF 2≤M98_STAT≤3; 2: severe evidences of error, IF M98_STAT>3). |
LE_M98_STAT |
Statistic of the nonstationarity ratio test by Mahrt (1998) for LE. |
LE_M98_FLAG |
Flag of the LE_M98_STAT (0: negligible evidences of error, IF M_98_STAT<2; 1: moderate evidences of error, IF 2≤M98_STAT≤3; 2: severe evidences of error, IF M98_STAT>3). |
FC_M98_STAT |
Statistic of the nonstationarity ratio test by Mahrt (1998) for FC. |
FC_M98_FLAG |
Flag of the FC_M98_STAT (0: negligible evidences of error, IF M_98_STAT<2; 1: moderate evidences of error, IF 2≤M98_STAT≤3; 2: severe evidences of error, IF M98_STAT>3). |
CO2 |
Carbon Dioxide (CO2) in mole fraction of wet air. |
CO2_SIGMA |
Standard deviation of carbon dioxide in mole fraction of wet air. |
H2O |
Water (H2O) vapor mole fraction. |
H2O_SIGMA |
Standard deviation of water vapor mole fraction. |
T_SONIC |
Sonic temperature. |
T_SONIC_SIGMA |
Standard deviation of sonic temperature. |
WS |
Wind speed. |
USTAR |
Friction velocity. |
W_SIGMA |
Standard deviation of vertical velocity fluctuations. |
U_SIGMA |
Standard deviation of lateral velocity fluctuations (towards main-wind direction after coordinates rotation). |
V_SIGMA |
Standard deviation of lateral velocity fluctuations (cross main-wind direction after coordinates rotation). |
ZL |
Monin-Obukhov stability parameter. |
MO_LENGTH |
Monin-Obukhov length. |
AT |
Air temperature. |
AP |
Air pressure. |
RHO |
Air density. |
CP |
Air heat capacity. |
CANOPY_HEIGHT |
Canopy height. |
SA_HEIGHT |
Sonic anemometer height. |
SA_NORTH_OFFSET |
Sonic anemometer north offset. |
INVALID_WIND_SECTOR_c1 |
Center of the first invalid wind sector, if any. |
INVALID_WIND_SECTOR_w1 |
Width of the first invalid wind sector, if any. |
INVALID_WIND_SECTOR_c2 |
Center of the second invalid wind sector, if any. |
INVALID_WIND_SECTOR_w2 |
Width of the second invalid wind sector, if any. |
INVALID_WIND_SECTOR_c3 |
Center of the third invalid wind sector, if any. |
INVALID_WIND_SECTOR_w3 |
Width of the third invalid wind sector, if any. |
Author(s)
Domenico Vitale
References
Vitale, D. Fratini, G. Bilancia, M. Nicolini, G. Sabbatini, S. Papale, D. A robust data cleaning procedure for eddy covariance flux measurements, Biogeosciences Discussions, 2019, pp 1-36, doi: https://doi.org/10.5194/bg-2019-270.
Examples
1 2 3 4 5 6 7 8 9 10 | PATH_WORKSET <- system.file("extdata", "ecworkset_example.csv", package = "RFlux")
PATH_ECMD <- system.file("extdata", "DE-HoH_ecmd.csv", package = "RFlux")
cleanset <- cleanFlux(path_workset=PATH_WORKSET,
path_ecmd=PATH_ECMD,
path_output=NULL,
FileName=NULL,
plotQC=FALSE,
storage=TRUE)
str(cleanset)
|
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