1. Introduction
The quantification of turbulent mixing in oceanic waters relies on estimating the rate of turbulent kinetic energy dissipation ϵ. Long-term measurements are required to establish the relationship between ocean mixing and large-scale physical processes. Unattended platforms, whether autonomous profilers or moored (e.g., Moum and Nash 2009; Perlin and Moum 2012), that allow measurements to be obtained at multiple depths in the water column for extended periods of time have become technologically feasible. However, these platforms can suffer from excessive movement, contaminating both velocity (Fer and Paskyabi 2014) and temperature (Zhang and Moum 2010) time series measurements. This is particularly problematic when the platform is “pumped” by orbital motions associated with surface waves at frequencies that can contaminate the inertial subrange of the velocity spectra (Fer and Paskyabi 2014) and the inertial-convective subrange of the temperature spectra (Zhang and Moum 2010). Similarly, the viscous subrange may also be contaminated by high-frequency mechanical vibrations and strumming of the mooring cable. These diverse sources of contamination must be removed from the spectra in order to estimate ϵ and the rate of thermal variance dissipation




To estimate ϵ(
2. Instrumentation and procedures
a. Instrumentation
Our moored turbulence package (MTP) consists of an acoustic Doppler velocimeter (ADV; Vector, Nortek AS), a fast-response temperature sensor (FP07, GE Thermometics), and a motion pack (MP; Rockland Scientific). The MP consists of a motion sensor with 6 degrees of freedom (O-Navi, Gyrocube); a MicroMag magnetometer to derive the instrument’s heading once its pitch and roll are reconstructed from the Gyrocube data; and a fast-response pressure sensor. The Gyrocube motion sensors provide orthogonal linear accelerations and rotation rates of the MP in 3D (Fig. 1), enabling the determination of the moored instruments’ translation velocity

(a) Plan view and (b) elevation view of the moored turbulence package drawn to scale. The battery pack (BP) and fast-response thermistor (FP07) are also illustrated. The frame of reference is located at the Gyrocube within the motion pack.
Citation: Journal of Atmospheric and Oceanic Technology 33, 11; 10.1175/JTECH-D-16-0041.1
We mounted the MP near the top of an in-line galvanized steel frame alongside the ADV, while the MicroSquid was located at the lower end of the frame with the FP07 tip located about 5 cm away from the ADV’s sampling volume (Fig. 1). The ADV is equipped with its own compass and a liquid level tilt sensor that provides heading, and redundant pitch and roll at 1 Hz, while velocities can be collected up to 64 Hz. The MP samples the ADV’s analog output at its specified sampling rate of 64 Hz, irrespective of the programmed sampling rate of the ADV. The measured ADV velocities are thus synchronized in time with the other data streams measured by the MP. The ADV’s data quality parameters and low-frequency (1 Hz) motion information, however, remain stored on its memory card. Within the frame, the ADV and the MP share the same vertical axis but not necessarily the same x and y axes (Fig. 1); however, the ADV’s horizontal plane can be rotated onto the MP’s frame of reference using the difference in their respective headings.
b. Data analysis procedures
1) Deriving the environmental velocities





















Complementary filtering is recommended to derive the low-frequency content of the pitch and roll from the accelerometers and the high-frequency content from time integrating the recorded rotation rates (Edson et al. 1998; Fer and Paskyabi 2014). The advantage of complementary filtering over time integrating the rotation rate signal over all frequencies is that inherent problems with sensor drift and error accumulation from integrating the (noisy) rotation rates are avoided. The technique amounts to low-pass filtering the detrended rotation rates around the horizontal axes (
































2) Obtaining the environmental velocity spectra
We detail two separate techniques to recover the environmental velocity spectra. The first is the cospectral technique, which is the exact representation of Eq. (2) in the frequency domain, while the second is the squared-coherency technique that is commonly employed to remove motion contamination from turbulence measurement platforms (e.g., Levine and Lueck 1999; Zhang and Moum 2010). We first describe the two techniques, followed by a discussion of their advantages and drawbacks.




























When the required assumptions of the squared-coherency technique are met, its use has several advantages over the cospectral technique. For instance, the squared-coherency spectra may be calculated directly using the measured acceleration
In the surface wave frequency band, however, the surface waves can induce motion by pumping of the mooring’s elements, while the surface wave–induced orbital motions can impart a (measurable) environmental contribution to the measured velocities. In this situation, the squared-coherency technique will underestimate the environmental spectral peak (variance), as the measured velocities contain variance from both the motion and environmental signal. The squared-coherency technique may even remove variance from the measurements that should in fact be added to the measured spectra to yield
3) Determining turbulence dissipation from the environmental spectra















3. Field data sources
a. Mooring deployment details
A 34-m-high mooring was anchored to the seafloor on the Australian North West Shelf in 105 m of water (Fig. 2) from 4 to 22 April 2012 and was equipped with two MTPs: one at 7.5 and the other at 20.5 m above the seabed (m ASB). The instruments ran out of power after about 10 days, one on 14 April (0600 UTC) and the other on 13 April (2100 UTC). The turbulent velocities were recorded on the ADV at 8 Hz, while the MPs sampled the analog output of the ADV at 64 Hz, resulting in eight redundant samples on the 16-GB compact flash memory card of the MP. All other available channels on the MP were recorded at 64 Hz, for example, Gyrocube motion sensor, magnetometer, and fast-response temperature and pressure sensors (Table 1). Other instruments on the mooring, detailed in Table 1, include an upward-pointing acoustic Doppler current profiler near the anchor (300-kHz Workhorse, Teledyne RD Instruments), providing current velocities from 7 to 40 m ASB in 1-m bins and 1-min averages; 22 temperature sensors (SBE56 and SBE39, Sea-Bird Electronics) sampling from 0.5 to 10 s; a temperature–pressure sensor sampling at 10 s (SBE39, Sea-Bird Electronics); and a conductivity–temperature sensor at 5.2 m ASB (SBE37, Sea-Bird Electronics) sampling at 15 s. Each of the two syntactic buoys (1 m in diameter) provided 180 kg of buoyancy to the mooring. The bottommost buoy was located directly above the highest MTP in the water column at about 22 m ASB, while the other was the topmost element of the mooring at 34 m ASB (Fig. 2b). A nearby Directional Waverider buoy (DWR; Datawell), located 9.5 km north in 125 m of water (Fig. 2a), provided directional surface wave displacement spectra, and hence significant wave heights and periods (Fig. 3). We used this information to identify periods when the moored instruments were expected to be pumped by the action of surface waves and for assessing the various means to recover the environmental velocity spectra.

(a) Regional bathymetry with the location of MTPs (diamond), Datawell Waverider buoy (X), and topographical upslope direction indicated. (b) Schematic of the mooring with location of the MTPs and buoyancy.
Citation: Journal of Atmospheric and Oceanic Technology 33, 11; 10.1175/JTECH-D-16-0041.1
Sampling program details for the instruments on the 34-m-long mooring anchored on the seabed in 105 m of water (19°41.6′S, 116°06.6′E). The shallowest SBE39 at 32.4 m ASB, and the MTPs also measure pressure.


Surface wave observations from the nearby Waverider buoy. (a) Significant wave height
Citation: Journal of Atmospheric and Oceanic Technology 33, 11; 10.1175/JTECH-D-16-0041.1
b. Velocity microstructure vertical profiles
A total of 121 microstructure velocity shear profiles were collected nearby, providing independent ϵ estimates to compare with those obtained from the MTPs. The majority of these shear profiles were within 2 km of the mooring, with a median distance of 900 m. These velocity shear profiles were collected with a vertical microstructure profiler (VMP500, Rockland Scientific Ltd.) during a 24-h period starting at 0700 UTC 10 April 2012. The VMP recorded the velocity shear from two airfoil probes, in addition to information from the following sensors: 3D accelerometers, a pressure sensor, high-accuracy temperature and conductivity sensors (SBE-3F and SBE-4C, Sea-Bird Electronics), and a fast-response temperature sensor (FP07). All data channels sampled at 512 Hz. Drop speeds were around 0.5–0.8 m s−1 with lower and more variable drop speeds near the surface and seafloor. The slowdown of the VMP near the seabed resulted in fewer dissipation estimates around the deepest MTP at 7.5 m ASB than at 20.5 m ASB.














4. Application to the moored field data
a. Background ocean conditions
Our site experiences large semidiurnal tides, and shelfbreak-generated shoaling nonlinear internal waves whose arrival at the site is not phased lock with the local barotropic tide (e.g., Bluteau et al. 2011a). The moored ADCP measured total velocities as high as 0.8 m s−1 that were directed on average at −27° from due east, almost aligning with the topographical slope at −60° from due east (Fig. 2a). The time-averaged velocities over the 8.5-min segments used for the turbulence analysis were on average 0.3 m s−1 and were 90% of the time between 0.1 and 0.5 s−1 at the measurement heights of the MTPs. The background stratification estimated from the moored thermistors was nearly linear with a buoyancy period of about 9 min (
During our deployment, the surface wave climate was dominated by the swell (

Predicted orbital velocities from linear wave theory in the horizontal for (a)
Citation: Journal of Atmospheric and Oceanic Technology 33, 11; 10.1175/JTECH-D-16-0041.1
b. Mooring motion
The dominant frequencies over which the instruments tilt or translate in space were provided by the accelerometers (Fig. 5). The acceleration spectral observations from both MTPs showed significant peaks at the semidiurnal and diurnal tidal frequencies (not shown); two peaks in the sea-swell frequency band (0.04–0.2 Hz) from surface wave–induced pumping of the mooring’s buoyancy; and multiple peaks at higher frequencies due to shaking and strumming associated with the mooring’s design (Fig. 5). Over the surface wave frequency band, the horizontal acceleration spectra typically contained two peaks: one associated with the storm-generated swell (

Example spectra of the time-integrated accelerometer signal at (a) 20.5 and (b) 7.5 m ASB during an 8-h period in the record. The spectra of the tangential velocities
Citation: Journal of Atmospheric and Oceanic Technology 33, 11; 10.1175/JTECH-D-16-0041.1
Unlike the accelerometers, the rotation rate sensors respond mainly to gravitational tilts, that is, the pitch and roll of the MTPs. We present in Fig. 5b the tangential velocity spectra
To summarize, the spectral peaks in the measured velocity at high frequencies, such as over the local seas’ frequency band and those contaminated by the mooring’s strumming and vibrations, resulted almost entirely from the frame’s motion. For these frequencies, the measured velocity spectra could be decontaminated using the squared-coherency technique [Eq. (12)]. In contrast, the long-period swell caused the frame to move (see Fig. 5), while the observed surface wave heights and periods produced measurable orbital velocities (i.e., an environmental signature) over the extent of our mooring, particularly in the horizontal direction (Fig. 4). The assumptions of the squared-coherency technique were not met, and so to recover the environmental spectra
c. Reconstructing the MTPs’ pitch and roll
Complementary filtering of the measured acceleration and rotation rate signals was used to estimate the pitch and roll of the frame. The cutoff frequency

Example spectra during a period of large swell for the pitch α at (a) 20.5 and (c) 7.5 m ASB, and example spectra for the roll ϕ at (b) 20.5 and (d) 7.5 m ASB. Each panel compares the spectra obtained from the ADV and from the Gyrocube data using different methods: by complementary filtering (subscript MTP) of the rotation rate and accelerometer signals with our chosen
Citation: Journal of Atmospheric and Oceanic Technology 33, 11; 10.1175/JTECH-D-16-0041.1
To further justify that for
Figure 6 compares the MTP’s pitch and roll in frequency space as reconstructed by complementary filtering against the redundant 1-Hz pitch and roll from the liquid level tilt sensor aboard the ADV. The ADV’s pitch and roll spectra were within the confidence intervals of the spectra estimated for the reconstructed pitch and roll from the MTPs (Fig. 6), although the MTPs often predicted more (less) variance over the swell (seas) than the ADV. The MTPs’ slight overprediction for the swell frequency band may result from the accelerometer signal, including small contributions from the frame’s translation. However, the ADV’s tilt sensor suffers from the same problem as the accelerometer, as it also responds (albeit differently) to both gravitational tilts and lateral translation. This response of the ADV’s tilt sensor to translation was particularly apparent at frequencies beyond
d. Examples of the recovered environmental velocity spectra
We show examples of the spectral correction for the horizontal and vertical velocity components at both MTPs during a period of large swell with orbital velocities of ≈10 cm s−1 at the measurement heights of the MTPs (Figs. 7a–d). As expected, the spectral peaks associated with the swell of both the environmental- and motion-induced velocities were largest in the horizontal for both MTPs, while the shallowest MTP was the most affected by the swell. The motion-induced velocities

Example velocity spectra from the topmost MTP in the (a) horizontal and (c) vertical directions during a period of large swell and from the lower MTP in the (b) horizontal and (d) vertical directions for the same period. (e)–(h) The squared coherency
Citation: Journal of Atmospheric and Oceanic Technology 33, 11; 10.1175/JTECH-D-16-0041.1
The examples from the shallowest MTP illustrate that the squared-coherency technique removed too much variance over the swell frequency band, particularly considering how small the motion-induced velocity spectral energy levels were compared to the measured velocities in the vertical (Fig. 7c). Most of the variance over the swell band was removed because of the large squared coherency
e. Estimated orbital velocities from the Waverider and the MTPs
Figure 8 compares the horizontal orbital velocities estimated from the Waverider’s measured surface heights and periods during the storm-generated swell (Fig. 3) against those estimated from the environmental spectra recovered using both the squared-coherency technique and the cospectral technique. The assessment is presented only for the shallowest MTP at 20.5 m ASB, which is the most susceptible to motion induced by surface waves. During our 3-week deployment, the orbital velocities derived from the spectra corrected with the squared coherency

(a) Time series of the horizontal orbital velocities at 20.5 m ASB estimated from the waverider’s measured wave heights, and from the environmental velocity spectra over the swell frequency band [Eq. (15)] for both the squared-coherency method and the cospectral method [Eq. (11)]. (b) Time series of the measured velocity magnitude over the same 30-min period used to estimate the Waverider’s statistics, along with the ratio between the orbital velocities and the time-averaged velocities. The Waverider’s orbital velocities were estimated via linear wave theory using the surface wave heights and periods presented for the swell in Fig. 3.
Citation: Journal of Atmospheric and Oceanic Technology 33, 11; 10.1175/JTECH-D-16-0041.1
5. Moored and profiling ϵ comparisons
Figure 9 compares the MTP’s time series of ϵ against a time-depth scatter of

(a) Temperature recorded by the SBE3F aboard the VMP overlaid with the contours from the temperature measurements on the mooring. (b) MTP (∘) and VMP (□) ϵ estimates. (c) Distance of VMP profiles from the mooring site. (d) The 5-min time-averaged velocity from the MTP at 20.5 m ASB.
Citation: Journal of Atmospheric and Oceanic Technology 33, 11; 10.1175/JTECH-D-16-0041.1
The 24-h VMP profiling period coincided with the passage of two internal waves, with the first passing the mooring at around 1400 UTC (Fig. 9a). This nonlinear internal wave was associated with a pulse of cold water and a rapid increase in the measured velocity at the MTP (Fig. 9c). The estimated ϵ from both the MTP at 20.5 m ASB and the VMP increased above
6. Conclusions
We recovered the environmental velocity spectra
Over the swell frequency band of our dataset, however, the main assumptions of the squared-coherency technique are violated because the orbital velocities are measurable at the velocimeter measurement height. The squared-coherency technique then underestimates the variance associated with these frequencies (e.g., Fig. 8) and may even remove some of the variance that must be added to the measured spectrum
What remains beyond the scope of the present study is whether measurements of ϵ can be obtained from the MTP close to the surface using the cospectral technique, when the inertial subrange model must be modified for the advection of turbulence from surface waves (e.g., Lumley and Terray 1983; Feddersen et al. 2007). This modification depends on










Australian Research Council Discovery Projects (DP 120103036 and DP 140101322), an Australian Research Council Linkage Project (LP110100017), and an Office of Naval Research Naval International Cooperative Opportunities Project (N62909-11-1-7058) funded this work. We thank staff members from the Australian Institute of Marine Science, the Naval Research Laboratory, the University of Western Australia, and the crew of the R/V Solander, who aided in the collection of the data. We thank Woodside Energy Ltd. for the provision of the wave data. We also thank Anouk Messen, who helped in the initial data analysis of the VMP.
REFERENCES
Bluteau, C. E., , Jones N. L. , , and Ivey G. N. , 2011a: Dynamics of a tidally-forced stratified shear flow on the continental slope. J. Geophys. Res., 116, C11017, doi:10.1029/2011JC007214.
Bluteau, C. E., , Jones N. L. , , and Ivey G. N. , 2011b: Estimating turbulent kinetic energy dissipation using the inertial subrange method in environmental flows. Limnol. Oceanogr.: Methods, 9, 302–321, doi:10:4319/lom.2011.9.302.
Bluteau, C. E., , Jones N. L. , , and Ivey G. N. , 2016: Estimating turbulent dissipation from microstructure shear measurements using maximum likelihood spectral fitting over the inertial and viscous subranges. J. Atmos. Oceanic Technol., 33, 713–722, doi:10.1175/JTECH-D-15-0218.1.
Edson, J. B., , Hinton A. A. , , Prada K. E. , , Hare J. E. , , and Fairall C. W. , 1998: Direct covariance flux estimates from mobile platforms at sea. J. Atmos. Oceanic Technol., 15, 547–562, doi:10.1175/1520-0426(1998)015<0547:DCFEFM>2.0.CO;2.
Emery, W. J., , and Thomson R. E. , 2001: Data Analysis Methods in Physical Oceanography. 2nd ed. Elsevier Science, 638 pp.
Feddersen, F., , Trowbridge J. H. , , and Williams A. J. III, 2007: Vertical structure of dissipation in the nearshore. J. Phys. Oceanogr., 37, 1764–1777, doi:10.1175/JPO3098.1.
Fer, I., , and Paskyabi M. B. , 2014: Autonomous ocean turbulence measurements using shear probes on a moored instrument. J. Atmos. Oceanic Technol., 31, 474–490, doi:10.1175/JTECH-D-13-00096.1.
Goodman, L., , Levine E. R. , , and Lueck R. G. , 2006: On measuring the terms of the turbulent kinetic energy budget from an AUV. J. Atmos. Oceanic Technol., 23, 977–990, doi:10.1175/JTECH1889.1.
Levine, E. R., , and Lueck R. G. , 1999: Turbulence measurement from an autonomous underwater vehicle. J. Atmos. Oceanic Technol., 16, 1533–1544, doi:10.1175/1520-0426(1999)016<1533:TMFAAU>2.0.CO;2.
Lumley, J. L., 1965: Interpretation of time spectra measured in high-intensity shear flows. Phys. Fluids, 8, 1056–1062, doi:10.1063/1.1761355.
Lumley, J. L., , and Terray E. , 1983: Kinematics of turbulence convected by a random wave field. J. Phys. Oceanogr., 13, 2000–2007, doi:10.1175/1520-0485(1983)013<2000:KOTCBA>2.0.CO;2.
Macoun, P., , and Lueck R. , 2004: Modeling the spatial response of the airfoil shear probe using different sized probes. J. Atmos. Oceanic Technol., 21, 284–297, doi:10.1175/1520-0426(2004)021<0284:MTSROT>2.0.CO;2.
Moum, J. N., , and Nash J. D. , 2009: Mixing measurements on an equatorial ocean mooring. J. Atmos. Oceanic Technol., 26, 317–336, doi:10.1175/2008JTECHO617.1.
Oakey, N. S., 1982: Determination of the rate of dissipation of turbulent energy from simultaneous temperature and velocity shear microstructure measurements. J. Phys. Oceanogr., 12, 256–271, doi:10.1175/1520-0485(1982)012<0256:DOTROD>2.0.CO;2.
Osborn, T. R., 1980: Estimates of the local rate of vertical diffusion from dissipation measurements. J. Phys. Oceanogr., 10, 83–89, doi:10.1175/1520-0485(1980)010<0083:EOTLRO>2.0.CO;2.
Osborn, T. R., , and Cox C. S. , 1972: Oceanic fine structure. Geophys. Fluid Dyn., 3, 321–345, doi:10.1080/03091927208236085.
Perlin, A., , and Moum J. N. , 2012: Comparison of thermal variance dissipation rates from moored and profiling instruments at the equator. J. Atmos. Oceanic Technol., 29, 1347–1362, doi:10.1175/JTECH-D-12-00019.1.
Pope, S. B., 2000: Turbulent Flows. 1st ed. Cambridge University Press, 770 pp.
Sreenivasan, K. R., 1996: The passive scalar spectrum and the Obukhov-Corrsin constant. Phys. Fluids, 8, 189–196, doi:10.1063/1.868826.
Trowbridge, J., , and Elgar S. , 2001: Turbulence measurements in the surf zone. J. Phys. Oceanogr., 31, 2403–2417, doi:10.1175/1520-0485(2001)031<2403:TMITSZ>2.0.CO;2.
Zhang, Y., , and Moum J. N. , 2010: Inertial-convective subrange estimates of thermal variance dissipation rate from moored temperature measurements. J. Atmos. Oceanic Technol., 27, 1950–1959, doi:10.1175/2010JTECHO746.1.