Instrument guide Fluxes:CSATCSAT + Li7500CSAT + KH20

Update 17/06/2011Simone KotthausPrevious version: 11/07/201015/12/2010

General Information• Raw data on I –drive, all other on dataBridge01 (A drive on Otago)• Intermediate results and plots are stored on A:/works• Final results and formatted raw data are stored on A:/data• File formats of txt files (raw data) can be found in

A:/data/META/London/KUMA_logbook.xls• (Internal information: File formats of netcdf according to /META/file.csv)

• The task is scheduled on Data02 to run at 1:30 am: 30 1 * * * cd /home/micromet/Roofprograms/ECFluxes/; ./FLUX_V5.sh• For troubleshooting, see below• If changes to the instrument setting are made, update location and

calibration file, for details see below

Content Working directoryA:/works/YYYY/London/

Output directoryA:/data/YYYY/London/

No QAQC Level_1/ECFluxes/ECpack L0

QAQC Level_2/ECFluxes/ECpack L1

QAQC and IMAS Level_3/ECFluxes/ECpack L2

LoggerNetKSK Mast 10_09_10.CR5

C:\CR5000\Fast\CR5000_Fast.dat

ROOF8

KH20H2O

CSAT3u, v, w, Ts CR5000

Data Logger

KSK Mast

wires

LoggerNetKSS tower 01_09_10.CR5C:\CR5000\CR5000_Fast.datwhich is on Otago linked toT:\CR5000\CR5000_Fast.dat

ROOF13

Li7500H2O, CO2

CSAT3u, v, w, Ts CR5000

Data Logger

KSS Tower

wires

OTAGO

HourlySplitKSK [hh:18]D:\Cr5000_outdata\KSK\fastHourly\KSKFast_YYDOY_HH.txt

HourlySplit [hh:28]D:\Cr5000_outdata\KSS\fastHourly\KSSFast_YYDOY_HH.txt

GAS-LAS-WXT-Ceil [hh:15]• grabs CSAT hourly data to I:\Data\YYYY\London\KSK\CSAT_Hrly\MM\KSKFastYYDOY_HH.txt\KSS\CSAT_Hrly\MM\KSSFastYYDOY_HH.txt

• The Otage drive I:\Data is mounted to Data02 under /media/London-I

• Output server databridge01 is mounted to Data02 under /media/micromet

1) LondonFlux_V11.R1) Calculate 30min averages to $OUT/$name_$site_$YY$DOY_30min.nc 3) write input files for ECpack to $WORK/Ecpack/$MM4) Plot 30 min averages to $WORK/Level_1/ECFluxes/plots/$MM

2) runECpack_V9.sh London specific info and data files required• KSK and KSS for L0 , L1, L2 input, averaging interval = 30 min• output to

$WORK/Level_?/ECFluxes/Ecpack/$site/$MM/Fluxout_$site_$YY$DOY.txt

Data02cronjob: FLUX_V5.sh [daily task: 01:30]Processing for KSK and KSS using Ecpack$OUT= /media/micromet/data/$yyyy/London/$level/$site/DAY $WORK=/media/micromet/works/$yyyy/London/

3) LondonFluxOut_V9.R• Final quality control, plot results, store netcdf on databridge:

$OUT/CSAT_Ecpack_$name_$site_$YY$DOY_30min.ncPlot results to $WORK/Level_1/ECFluxes/plots/$MM/.$plotname.png

back

CSAT

(gre

en)

Pow

er fo

r CSA

T (r

ed)

Gro

und

for C

SAT

(c

lear

/bla

ck)

Pow

er fo

r KH

20 (

red)

KH20

(gre

en)

KH20

(red

)

CSAT

(whi

te)

KH20

(whi

te/c

lear

)

G 12 V

CSAT

(bro

wn)

KH20

(bla

ck)

SDM-C1 SDM-C2 SDM-C3H

20L G

Gro

und

KH20

(bla

ck)

1) Sonic anemometer: CSAT32) Infrared gas analyser: KH20

2

21 1

KSK mast

wire

ext

ensi

on

BUT currently:No gas analyser in

operation!

back

CSAT

(gre

en)

LI-7

500

(gre

en)

LI-7

500

(red

)

LI-7

500

(yel

low

)

Pow

er fo

r CSA

T (r

ed)

Gro

und

for C

SAT

(blu

e)

CSAT

(whi

te)

G 12 V G12 V

CSAT

(bro

wn)

SDM-C1 SDM-C2 SDM-C3LI

-750

0 (b

lue)

CSAT

(bla

ck)

(blu

e)

(bro

wn)

(gre

y)

Cable extension for LICOR

(signal conversion)

WXT510

CSAT3

LiCo

r750

0

Sky

sens

ors

CNR1

(bla

ck)

(red

)

Separate power supplyfor LI-7500, connected to Logger power supply

- +

KSS tower

backLoggerNet settings

Linux Scheduled Task = cronjobCrontab = list of current cronjobs

To display current crontab, type ‘crontab -l’ which should result in: SHELL=/bin/bashPATH=/etc:/bin:/sbin:/usr/bin:/usr/sbin:/usr/local/sbin:/usr/local/binHOME=/home/simon25 2 * * * /home/simon/Roof/ECFluxes/FLUX_V9.sh1 5 * * * /home/simon/Roof/ECFluxes/append_DiagSummary.sh

To make changes, edit crontab with ‘crontab -e’.

minute past the hour

hour of the day

location/name of cronjobevery day of weekevery month

every day

back

runEcpack.sh needs the following input:

Working directories: A:/works/yyyy/London/Level_1/ECFluxes/Ecpack/site/MM/A:/works/yyyy/London/Level_2/ECFluxes/Ecpack/site/MM/A:/works/yyyy/London/Level_3/ECFluxes/Ecpack/site/MM/

• Daily data files: siteCSAT_yyDOY.nc• Calibration files CSAT_London_site_yyDOY.qq, H2O_London_site_yyDOY.qq• Time and reference data information: ectimes_30_yyDOY.txt• Planar fit boundaries planint_yyDOY.datControl files are stored under /home/simon/ECFluxes/Ecpack• ecconf_London_CSAT or ecconf_London_CSAT_Li7500 or

ecconf_London_CSAT_KH20 is used according to instrument setting, these files also specify which sec_London.dat is needed

Perform after PF:standard reference frame for sonic measurements

Coordinate System

• Planar Fit Method (Wilczak et al. 2001)

Planar least squares fit applied to collection of run mean horizontal & vertical velocities to find b-constants. Use boundaries of min. 24h to include different wind directions Assumption of stationary instrument position

• Double Coordinate Rotation (Kaimal and Finnigan 1994)

1) Yaw-correction: fix z-axes

2) Pitch-correction: fix y-axes

Strong winds can result in unreasonable tilt angles, hence not advisable

mmm vbubbw 210

0v

0w

• Speed of sound depends temperature and humidity

Correct covariance

Correction of sonic temperature for humidity (Schotanus et al. 1983)

q

TT s

51.01

''51.0''51.0'''' qwTwTqwTwT sss

• Fluctuations in air density contribute to non-zero vertical velocities

Ad Webb-term for turbulent fluxes

WPL-correction (Webb et al. 1980)

u

uwk

w

T

Twkw

v

v ''2

''''1

• limited frequency response of sensors• averaging over path rather than taking a point value• separation between sensors for different quantities compare measured spectra with theoretical spectra

Correction for frequency losses (Moore 1986, Horst 1999)

Settings: sensor positions

Example - EC_orientation.csv

Site zs zd zp csatSNdegCSAT

irgaType

irgaSNdegIRGA

drcnIRGA

sep

sepX

sepY begin end

KSK 48.1 19 29.1 0192-2 175 1 75H-0995 175 355 18 18 0 2008001 2009274

KSK 48.1 19 29.1 1188-1 190 0 NA NA NA NA NA NA 2009275 2010238

KSK 48.1 19 29.1 1188-1 240 2 1122 220 30 15 12 5 2010238 2015001

KSS 59.6 19 37.6 0192-2 260 1 75H-0995 260 80 14 14 0 2009274 2015001

• zs = sensor height, zd = displacement height, zp = z’ = zs – zd

• begin, end = YYYYDOY• csatSN = CSAT3 serial number, irgaSN = serial number of gas analyser• irgaType = type of infrared gas analyser, 0=none, 1=Li7500, 2=KH20

1) degCSAT = degree CSAT head towards N2) degIRGA = degree KH20 or Li7500 towards N3) drcnIRGA = direction from CSAT3 towards IRGA = sitting in CSAT

volume looking towards IRGA volume as degree from north4) sep = separation from CSAT volume to IRGA volume in cm5) sepX = separation from CSAT volume to IRGA volume, x

component – referring to CSAT3 right hand side coordinate system6) sepY = separation from CSAT volume to IRGA volume, y

component

N

TroubleshootThe most common failure is caused by an interference between

hourly split and WXT-programme:• An hourly file is a) not or b) just partly (first 6 minutes) transferred from

D:\CR3000_outdata\ to I:\Data\London\$site\YYYY\CSAT_Hrly\MM\

Procedure:1. Compare data availability in both directories2. a) Copy file from D:\... To I:\...

b) open hourly file in both directories and append data from D:\... to the file in I:\...

3. Login on Data02 via putty4. Go to script path “cd /home/micromet/Roofprograms/ECFluxes/”5. Rerun the scheduled task “./FLUX_V9.sh”If you want to rerun the process for a day other that yesterday, run

“./FLUX_V9_rerun.sh N”With N = number of days before today (e.g. Day before yesterday would be N=2)

back