HyperPro II Optical Profiler
Deployment and data processing
Geoff MacIntyre
May 15, 2014
Outline
• HyperPro II overview
• Instrument setup and configuration
• Deployment best practices
• Data logging and real-time display software
• Data processing and analysis
©2014 Sea-Bird Scientific Inc.
Applications
Measures colour of the ocean and how it varies
spectrally throughout the euphotic zone
 calibration / validation data for
ocean colour satellites
 biological and physical
oceanographic research involving
light in the ocean
 naval research involving
characterization of underwater light
field
©2014 Sea-Bird Scientific Inc.
Features
Free-falling
• Low tilt angle
• Free of ship shadow
Hyper or multi-spectral radiometers
Downwelling
irradiance sensor (Ed)
Temperature &
Conductivity probe
Buoy mode for surface
measurements
Upwelling radiance
sensor (Lu)
Full suite of ancillary measurements
WET Labs ECO puck
(Chl a, CDOM, Turb)
• Temperature and conductivity probe
• Tw accuracy 0.01 C from -2.5 to +40
• C accuracy 0.005 mS/cm
• WET Labs ECO pucks
• Tilt sensor
• Pressure sensor
• Depth accuracy 0.1 m (Druck 0-300 psi)
©2014 Sea-Bird Scientific Inc.
Pressure sensor
Surface reference
Surface reference sensor (Es)
• Provides reference irradiance data
during vertical profile
• Captures any changes in the
reference light field
• Used to normalize in-water data for
water leaving radiance calculations
©2014 Sea-Bird Scientific Inc.
Computer and power
Computer with SatView data logging
and real-time display software
Power supply (12 VDC)
MDU-200
power
supply
HyperPro
computer
•
•
©2014 Sea-Bird Scientific Inc.
Converts 12 VDC to 48 VDC
Converts RS485 to RS232
Setup
Sun
Cable
Mechanical
Termination
Power
MDU-200 supply
Computer
+-
Research
Vessel
Radiance
Irradiance
Profiler II in free-fall configuration
©2014 Sea-Bird Scientific Inc.
Deployment
©2014 Sea-Bird Scientific Inc.
Software
SatView 2.9.5
• Data logging
• Real-time graphical display
©2014 Sea-Bird Scientific Inc.
ProSoft 7.7
• Data processing
• 3D plotting of derived parameters
Data logging and display
SatView 2.9.5
• Primary function is for data logging
• Secondary function is for real-time display of data
• Can be used with any Satlantic instrument
©2014 Sea-Bird Scientific Inc.
SatView setup
• Load instrument
package file (SIP) into
main window
• Select COM ports
• Configure settings
• Setup display
windows
•
•
•
•
Depth profile
Spectral displays
Times series view
Ancillary data
• Pressure tare
©2014 Sea-Bird Scientific Inc.
SatView display
©2014 Sea-Bird Scientific Inc.
Optical data processing
ProSoft 7.7
•
•
•
•
Data processing and analysis package
Written and compiled using MatLab version 6.5.0
Automated data processing standardized to remove subjectivity
Data and metadata organization based on the Hierarchical Data Format (HDF)
Minimum requirements
• Operating System: Microsoft® Windows® 2000/2003/XP/Vista Processor (CPU): 1 GHz
32-bit (x86)
• Memory (RAM): 512 MB
• Free Disk Space: 50 MB
©2014 Sea-Bird Scientific Inc.
ProSoft overview
Processing Context
• Defines all the parameters necessary for processing
instrument data
• Current Instrument context created by loading all cal/SIP
files for instrument package
• Current Parameters context created by configuring
processing parameters
Multi-level processing
• Enables user to process data from raw to final data products
in one step
• All intermediate processing levels are automatically
processed with accompanying files (*.HDF) being produced
Single level processing
• Enables user to process data over a single level
©2014 Sea-Bird Scientific Inc.
Data levels defined
Level 1
• raw binary data file from the profiler
• file extension is .RAW
Level 1a
• binary data is extracted from raw data
• extracted information is grouped along with its calibration information
• file nametag is _L1a
Level 1b
• level1b data is calibrated, CAL, BIN or NULL dark correction is applied
• file nametag is _L1b
Level 2
• shutter dark correction is applied
• profile editing is performed
• file nametag is _L2
©2014 Sea-Bird Scientific Inc.
Data levels defined
Level 2s
• data interpolated onto a common co-ordinates vector, which is either depth (Profiler)
or time (Reference only or SAS)
• file nametag is _L2s
Level 3a
• includes averaging of Level 2s data as defined by the processing parameters (e.g.
time, depth)
• file nametag is _L3a
Level 4
• includes higher level data products (users choice) calculated from level 3a data
• products include normalized water leaving radiance, reflectance profiles,
photosynthetically available radiation etc.
• file nametag is _L4
©2014 Sea-Bird Scientific Inc.
Current instrument
To create new instrument context:
 click on ‘New’
 Browse to folder with SIP files
©2014 Sea-Bird Scientific Inc.
Load SIP files
Note: SIP file = zip file with all cal files
©2014 Sea-Bird Scientific Inc.
Instrument configuration
Load all required cal files
• Select cal files
• Click >> at bottom
Setup parameters for each
calibration file
• Select cal file
• Set parameters
• See ref table on p14 of manual
• Set distances
• See diagram on p16 of manual
©2014 Sea-Bird Scientific Inc.
Calibration file parameters
Cal File
Prefix
Sensors
Instrument
Type
Immersion
Coefficients
Measureme
nt Mode
Frame Type
HED
Es
Reference/SAS
Air
Surface
ShutterDark
HSE
Es
Reference/SAS
Air
Surface
ShutterLight
MPR*
Tilt Press T
Profiler/Ancillary
Water
FreeFall
LightAncCombi
ned/ Anc
HPE
Ed
Profiler
Water
FreeFall
ShutterLight
PED
Ed
Profiler
Water
FreeFall
ShutterDark
HPL
Lu
Profiler
Water
FreeFall
ShutterLight
PLD
Lu
Profiler
Water
FreeFall
ShutterDark
BB2F
Fluor
ECO Series IOP
Not Required
[FreeFall Surface]
Not Required
©2014 Sea-Bird Scientific Inc.
Sensor parameters
ProSoft references
optical/ancillary data to
pressure during processing
Sensors physically offset
from pressure sensor
Enter sensor distance
measurements
Enter Pressure Tare
method
Enter Water Medium
©2014 Sea-Bird Scientific Inc.
Pressure Tare
The Pressure Tare parameter is used to adjust
measured pressure values for atmospheric
pressure, there are two methods
• ‘On Deck’ (recommended)
• ‘In water’
The ‘On deck’ pressure tare is taken with the
profiler held upright on deck of the ship
The pressure tare value is captured by SatView
and added to the data file
Pressure tare is then equal to atmospheric
pressure (~10.1 m)
©2014 Sea-Bird Scientific Inc.
Sensor position measurements
Sea surface
©2014 Sea-Bird Scientific Inc.
Lu sensor
Atmospheric
pressure
Lu distance
to surface
Ed distance
to surface
Pressure
reference
Pressure Tare
• All data referenced to depth
• Must compensate for
physical offset of instruments
on package
• Ed sensor referenced to
pressure sensor; then all
other sensors references to
Ed sensor
Ed sensor
Sensor position measurements
Pressure Tare value is added to the distance from the Ed sensor to the
pressure sensor reference line
Sensor distance values can be measured or looked up in table (p18 of manual)
HyperPro II
Ed
Lu
ECO
Distance to Surface
0.0
0.316
0.264
Distance to Pressure
0.786
0.0
0.0
©2014 Sea-Bird Scientific Inc.
Sensor position measurements
©2014 Sea-Bird Scientific Inc.
Sensor position example
Pressure Tare = pressure tare value from SatView + Ed distance to pressure
Pressure Ed = measured pressure – Pressure Tare
Pressure Lu = measured pressure – Pressure Tare + distance to surface
Uncorrected pressure sensor reading = 10.886 m
Atmospheric pressure = 10.1 m
Ed distance to pressure = 0.786
Ed sensor is therefore at: 10.886 m – (10.1 m + 0.786 m) = 0 m
Lu sensor is therefore at: 10.886 m – (10.1 m + 0.786 m) + 0.316 m = 0.316 m
©2014 Sea-Bird Scientific Inc.
Current parameters
Current Parameters defines processing factors such as
data filtering, averaging and interpolating
User can set up and save a few different ‘Current
Parameters’ to use for processing data sets for different
purposes
Can be setup independent of the specific instrument
used to log the data, examples:
• HyperPro 1m bins
• HyperPro tilt edit off
• HyperSAS 1s averages
©2014 Sea-Bird Scientific Inc.
New parameters context
Setup processing parameters
•
•
•
•
•
Profile editing
Dark correction
Averaging
Data filtering
Level 4 settings
©2014 Sea-Bird Scientific Inc.
Processing
Only have to perform Current Instrument and
Current Parameters set up the first time you
use the instrument, unless:
• you add a new sensor
• get new calibration files
• want to change your processing parameters
©2014 Sea-Bird Scientific Inc.
Load raw data files
©2014 Sea-Bird Scientific Inc.
Processing complete!
©2014 Sea-Bird Scientific Inc.
Common problems
Issue:
• processing locks up during conversion from Level 3 to 4
• error message “Matrix dimensions must agree”
• likely an incorrect setting for a cal file in ‘Instrument Context’
Solution:
• check instrument context setup
• check each of the cal file settings for correct:
• Instrument type
• Frame type
Issue:
• processing locks up during conversion from Level 1b to 2
• error message “index exceeds matrix dimensions”
Solution:
• wrong dark correction method selected for type of instrument
• edit processing parameters
©2014 Sea-Bird Scientific Inc.
HDF viewer
©2014 Sea-Bird Scientific Inc.
Surface reference
©2014 Sea-Bird Scientific Inc.
Downwelling irradiance
Save plot as image
File -> Save As -> .png
©2014 Sea-Bird Scientific Inc.
Water leaving radiance
©2014 Sea-Bird Scientific Inc.
Chlorophyll a
©2014 Sea-Bird Scientific Inc.
Turbidity
©2014 Sea-Bird Scientific Inc.
PAR
©2014 Sea-Bird Scientific Inc.
Export to ASCII
Export data to ASCII format for use in MS Excel
• General data
• Turbidity/Par data
Export data in MAT files for use with MatLab
©2014 Sea-Bird Scientific Inc.
Questions
Thank you
©2014 Sea-Bird Scientific Inc.