Flow of meteorological, flux and soil data into databases
Introduction
Data from SMEAR II is processed automatically for
- Online graphs for monitoring of data quality and for the SMEAR webpage
- SMEAR database
- ICOS Ecosystem and Atmospheric Thematic Centres, data eventually available at Carbon Portal
The online graphs are showing either 30 min averages or momentary data. Soil variables (temperature, moisture, water potential, heat flux) are horizontally (layer-wise) averaged vertical profiles.
Time resolution of the data in SMEAR database is one minute except turbulent fluxes are 30 min averages. Soil variables are layer-wise averaged vertical profiles. Below-canopy PAR is average of each sensor array (maapar, 3xcanpar).
The Pre-ICOS ecosystem data consisted of 30 min averages and instantaneous records (1 min averages in case of very frequent measurements) of sensor-wise data, i.e. soil variables and below-canopy PAR measured at different locations are submitted as separate variables. The data flow is continuation of past projects such as IMECC, InGOS, GHG-Europe and Carboextreme.
ICOS ecosystem data is relatively unprocessed sensor-wise meteo, radiation and soil data.
ICOS atmospheric data consists of CO2, H2O, CH4 and CO concentration profiles (Picarro G2401) and 1-min meteorological data (T, RH, WS, WD) taken at 16.8 m, 67.2 m and 125 m.
SMEAR databases and online graphs
Near real time data
All the relevant data is copied hourly to disk servers in Helsinki by script hippuko on server timo in Hyytiälä.
Data processing server hippuko.atm.helsinki.fi runs set of data processing scripts hourly or daily. For instance, one minute and half hour averages are calculated from mast, radiation tower, present weather sensor and below-canopy radiation measurements as well as soil temperature and moisture.
The online processed data are saved in intermediate files on hippuko and inserted to MySQL database 'smear' at db5.csc.fi, tables 'HYY_META', 'HYY_EDDY233','HYY_EDDYTOW', 'HYY_EDDYSUB' and 'HYY_DMPS'...
Quality-checked data
Online-processed data in the databases are replaced every couple of months with data having up-to-date calibration corrections, visual quality check etc.
The processed meteorological and soil data are inserted manually into MySQL databases at db5.csc.fi.
Some of the data update scripts can be found at \\aella.ad.helsinki.fi\h528\smear\hyytiala\matlab\database.
Pre-ICOS (RETIRED)
Near real time data
Selection of meteorological, soil and flux variables is sent daily to ICOS ETC (European Fluxes Database). See description of ICOS ATC greenhouse gas data here.
Scheduled task is launched on Hippuko every morning.
It collects
- half-hourly averaged data (ave=30)
- data at original (1 min) time resolution (ave=1)
from before mentioned intermediate data compiled by the online processing scripts. The soil and below-canopy PAR data are sensor-wise (for SMEAR database the scripts produce spatially averaged data) instantaneous records and 30 min averages. Final product is daily datafiles in comma-separated text format. The result files also include two header rows with variable names and units. These are defined in files icos_columns.txt.
Unlike data in atmo_monthfiles, SMEAR database etc. the date&time columns in ICOS NRT data indicate the end of the averaging period!
Raw eddy233 data (24 files) from previous day are copied from atm-raw into daily zip archive on Hippuko.
Phenology camera picture taken at 12 on previous day is also copied to Hippuko.
The data and phenology camera pictures are then synced to European Fluxes database (ftp addresses //gaia.agraria.unitus.it/imeccreal/fi-hyy and //gaia.agraria.unitus.it/icosnrt/Fi-Hyy).
Variables in ICOS ETC NRT data are listed below. Latest version of the instrument metadata file can be found at
\\aella.ad.helsinki.fi\h528\smear\hyytiala\Database_EU\GHG-Europe_InGOS_ICOS\Fi_Hyy_BADM_YYYYMMDD.xls
This is the metadata format used for all data submitted to European Fluxes Database.
Quality-checked data
Consolidated dataset of previous year is submitted to ICOS ETC once a year (early spring).
ICOS ecosystem variable | measurement | SMEAR database |
Ta_1_1_1 | Air temperature 4.2 m "mast" | T42 |
Ta_1_2_1 | Air temperature 8.4 m "mast" | T84 |
Ta_1_3_1 | Air temperature 16.8 m "mast" | T168 |
Ta_1_4_1 | Air temperature 33.6 m "mast" | T336 |
Ta_1_5_1 | Air temperature 50.4 m "mast" | T504 |
Ta_1_6_1 | Air temperature 67.2 m "mast" | T672 |
RH_2_3_1 | RH 16.8 m "mastmet" | RH168 |
CO2_1_1_1 | CO2 4.2 m mast | CO242 |
CO2_1_2_1 | CO2 8.4 m mast | CO284 |
CO2_1_3_1 | CO2 16.8 m mast | CO2168 |
CO2_1_4_1 | CO2 33.6 m mast | CO2336 |
CO2_1_5_1 | CO2 50.4 m mast | CO2504 |
CO2_1_6_1 | CO2 67.2 m mast | CO2672 |
H2O_1_1_1 | H2O 4.2 m mast | H2O42 |
H2O_1_2_1 | H2O 8.4 m mast | H2O84 |
H2O_1_3_1 | H2O 16.8 m mast | H2O168 |
H2O_1_4_1 | H2O 33.6 m mast | H2O336 |
H2O_1_5_1 | H2O 50.4 m mast | H2O504 |
H2O_1_6_1 | H2O 67.2 m mast | H2O672 |
Pa_1_1_1 | Air pressure | Pamb |
P_1_1_1 | Total precipitation, Vaisala PWS | Precipacc |
P_snow_1_1_1 | Snow precipitation, Vaisala PWS | Snowfallacc |
SWin_1_1_1 | Global shortwave radiation, Middleton pyranometer at REA tower | Glob |
SWdif_1_1_1 | not measured | diffGlob |
SWout_1_1_1 | Reflected shortwave radiation, Middleton pyranometer mast 125 m | RGlob125 |
PPFD_1_1_1 | PAR Li-Cor 190 radiation tower | PAR |
PPFDd_1_1_1 | Diffuse PAR, Delta BF3/5 radiation tower | diffPAR |
PPFDr_1_1_1 | Reflected PAR, mast 67 m | RPAR |
NDVI_1_1_1 | Normalized Difference Vegetation Index, mast 31 m | NDVI |
LWin_1_1_1 | Incoming longwave radiation, mast 31 m | Lwin |
LWout_1_1_1 | Outgoing longwave radiation, mast 31 m | Lwout |
PPFDbc_1_1_1 | Below-canopy PAR, canpar unit 1 sensor 1 | canPAR1 (mean of 5 sensors) |
PPFDbc_2_1_1 | Below-canopy PAR, canpar unit 1 sensor 2 |
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PPFDbc_3_1_1 | Below-canopy PAR, canpar unit 1 sensor 3 |
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PPFDbc_4_1_1 | Below-canopy PAR, canpar unit 1 sensor 4 |
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PPFDbc_5_1_1 | Below-canopy PAR, canpar unit 1 sensor 5 |
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G_1_1_1 | Soil heat flux (catchment Hukseflux 1) | G_sc (mean of 4 sensors + heat storage change) |
G_2_1_1 | Soil heat flux (catchment Hukseflux 2) |
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G_3_1_1 | Soil heat flux (catchment Hukseflux 3) |
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G_4_1_1 | Soil heat flux (catchment Hukseflux 4) |
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Fc_1_1_1 | CO2 flux, eddy covariance mast 23.3 m | F_c |
E_1_1_1 | Evapotranspiration, eddy covariance mast 23.3 m | E |
H_1_1_1 | Sensible heat flux, eddy covariance mast 23.3 m | H |
Ts_1_1_1 | Soil temperature pit 100 humus | tsoil_humus (mean of 5 sensors) |
Ts_2_1_1 | Soil temperature pit 130 humus |
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Ts_3_1_1 | Soil temperature pit 160 humus |
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Ts_1_2_1 | Soil temperature pit 100 A horizon | tsoil_A (mean of 5 sensors) |
Ts_2_2_1 | Soil temperature pit 130 A horizon |
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Ts_3_2_1 | Soil temperature pit 160 A horizon |
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Ts_1_3_1 | Soil temperature pit 100 B1 horizon | tsoil_B1 (mean of 5 sensors) |
Ts_2_3_1 | Soil temperature pit 130 B1 horizon |
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Ts_3_3_1 | Soil temperature pit 160 B1 horizon |
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Ts_1_4_1 | Soil temperature pit 100 B2 horizon | tsoil_B2 (mean of 5 sensors) |
Ts_2_4_1 | Soil temperature pit 130 B2 horizon |
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Ts_3_4_1 | Soil temperature pit 160 B2 horizon |
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Ts_1_5_1 | Soil temperature pit 100 C1 horizon | tsoil_C1 (mean of 5 sensors) |
Ts_2_5_1 | Soil temperature pit 130 C1 horizon |
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Ts_3_5_1 | Soil temperature pit 160 C1 horizon |
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SWC_1_1_1 | Soil water content pit 100 humus | wsoil_humus (mean of 5 sensors) |
SWC_2_1_1 | Soil water content pit 130 humus |
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SWC_3_1_1 | Soil water content pit 160 humus |
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SWC_1_2_1 | Soil water content pit 100 A horizon | wsoil_A (mean of 5 sensors) |
SWC_2_2_1 | Soil water content pit 130 A horizon |
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SWC_3_2_1 | Soil water content pit 160 A horizon |
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SWC_1_3_1 | Soil water content pit 100 B1 horizon | wsoil_B1 (mean of 5 sensors) |
SWC_2_3_1 | Soil water content pit 130 B1 horizon |
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SWC_3_3_1 | Soil water content pit 160 B1 horizon |
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SWC_1_4_1 | Soil water content pit 100 B2 horizon | wsoil_B2 (mean of 5 sensors) |
SWC_2_4_1 | Soil water content pit 130 B2 horizon |
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SWC_3_4_1 | Soil water content pit 160 B2 horizon |
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SWC_1_5_1 | Soil water content pit 100 C1 horizon | wsoil_C1 (mean of 5 sensors) |
SWC_2_5_1 | Soil water content pit 130 C1 horizon |
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SWC_3_5_1 | Soil water content pit 160 C1 horizon |
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