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Seabird

Hakai Seabird Data Processing workflow follow closely the recommendations provided by Sea-Bird within the SBE Data Processing Manual. Hakai essentially uses a python wrapper to interface the Seabird SBEDataProcessing software to run the different processing steps involved in the standard processing of the Seabird CTD data.

The Python wrapper to interface the Seabird SBEDataProcessing software maintained and available within the hakai-data-tools/ctd-tools/seabird-proc/ repository.

Procedure summary

For each Seabird hex files submitted, the following steps are applied: very step described here is executed within the Seabird Data Processing Software.

  1. Convert hex file to cnv with matching nearest prior .xmlcon file and .psa file.1
  2. Ignore the first minute of data (240 records at 4Hz) which includes data recorded while the instrument is lowered to the soak depth.
  3. Low-Pass Filter Correction:
    1. Low pass filter = 0.5: Temperature, Conductivity, Transmissivity, Absorbance, Rinko Oxygen Sensor
    2. Low pass filter = 1: Pressure
  4. Alignment Correction
    1. Temperature: 0.50s
    2. Seabird Oxygen (SBE43) Voltage: 3.00s
    3. Fluorescence: 0.25s
    4. Transmissometry (CStar): 0.35s
    5. Rinko Oxygen Voltages: 2.00s
  5. Thermal Mass Correction
    1. alpha = 0.0400
    2. beta = 8.0000
  6. Loop Edit Correction
    1. Minimum Speed: 0.25m/s
    2. Soak Detection
      1. Minimum Depth: 1 m
      2. Maximum Depth: 5 m
      3. Use Deck Pressure: Yes
  7. Derive Practical Salinity [Constant Geographic Position: 50N, 125W]
  8. Derive Oxygen Concentration from raw voltage
    1. docdt = 2s
    2. tau correction = Yes
  9. Vertical
    1. Bin type = decibars
    2. BinSize=1
    3. Exclude bad scans = Yes
    4. Skip over = 20
    5. No surface bin

Maintenance

New configuration .xmlcon and .psa files should be added to their respective directory: .xmlcon file, .psa files

Files should follow the naming convention: `{model}-{serial number}_{date:yyyymmdd}.[extension]

Deployment

Since the SBEDataProcessing Software is only available for windows. The tool is runned within a dedicated server hosted within the Hakai Victoria Wharf street office.

  1. The python wrapper match for a given SBE hex file, the related instrument serial number and the closest xmlcon calibration file available within the xmlcon files directory prior to the collection date. ↩