Fix ever-changing RDI RiverPro depth bin ranges

examples/data/dolfyn/test_data/RDI_withBT.dolfyn.log

@@ -3,8 +3,9 @@ root - INFO - cfgid0: [7f, 7f]
 root - INFO - {'nbyte': 579, 'dat_offsets': array([ 20,  79, 144, 282, 352, 422, 492])}
 root - INFO - pos 20
 root - INFO - id 0 offset 20
-root - INFO - Number of cells set to 17
-root - INFO - Cell size set to 1.0
+root - DEBUG - Number of cells set to 17
+root - DEBUG - Cell size set to 1.0
+root - DEBUG - Bin 1 distance set to 2.09
 root - INFO - Read Config
 root - INFO - Read Fixed
 root - INFO - id 128 offset 79
@@ -13,9 +14,9 @@ root - INFO - id 512 offset 282
 root - INFO - id 768 offset 352
 root - INFO - id 1024 offset 422
 root - INFO - id 1536 offset 492
-root - INFO - Done: {'prog_ver': 51.41, 'inst_model': 'Workhorse', 'beam_angle': 20, 'freq': 600, 'beam_pattern': 'convex', 'orientation': 'down', 'n_beams': 4, 'n_cells': 17, 'pings_per_ensemble': 1, 'cell_size': 1.0, 'blank_dist': 0.88, 'profiling_mode': 1, 'min_corr_threshold': 64, 'n_code_reps': 5, 'min_prcnt_gd': 0, 'max_error_vel': 2.0, 'sec_between_ping_groups': 0.5, 'coord_sys': 'earth', 'use_pitchroll': 'yes', 'use_3beam': 'yes', 'bin_mapping': 'yes', 'heading_misalign_deg': 0.0, 'magnetic_var_deg': 0.0, 'sensors_src': '01111101', 'sensors_avail': '00111101', 'bin1_dist_m': 2.09, 'transmit_pulse_m': 1.18, 'water_ref_cells': [1, 5], 'false_target_threshold': 50, 'transmit_lag_m': 0.24, 'bandwidth': 0, 'power_level': 255, 'serialnum': 18655}
-root - INFO - self._bb False
-root - INFO - self.cfgbb: {}
+root - INFO - Done: {'prog_ver': 51.41, 'inst_make': 'TRDI', 'inst_type': 'ADCP', 'rotate_vars': ['vel'], 'has_imu': 0, 'inst_model': 'Workhorse', 'beam_angle': 20, 'freq': 600, 'beam_pattern': 'convex', 'orientation': 'down', 'n_beams': 4, 'n_cells': 17, 'pings_per_ensemble': 1, 'cell_size': 1.0, 'blank_dist': 0.88, 'profiling_mode': 1, 'min_corr_threshold': 64, 'n_code_reps': 5, 'min_prcnt_gd': 0, 'max_error_vel': 2.0, 'sec_between_ping_groups': 0.5, 'coord_sys': 'earth', 'use_pitchroll': 'yes', 'use_3beam': 'yes', 'bin_mapping': 'yes', 'heading_misalign_deg': 0.0, 'magnetic_var_deg': 0.0, 'sensors_src': '01111101', 'sensors_avail': '00111101', 'bin1_dist_m': 2.09, 'transmit_pulse_m': 1.18, 'water_ref_cells': [1, 5], 'false_target_threshold': 50, 'transmit_lag_m': 0.24, 'bandwidth': 0, 'power_level': 255, 'serialnum': 18655}
+root - INFO - self._BB False
+root - INFO - self.cfgBB: {}
 root - INFO -   taking data from pings 0 - 1721
 root - INFO -   1721 ensembles will be produced.
 
@@ -98,4 +99,3 @@ root - DEBUG -   pos: 865, pos_: 0, nbyte: 138, k: 0, byte_offset: -1
 root - DEBUG - Trying to Read 512
 root - INFO -   Reading code 0x200...
 root - INFO - Read Corr
-root - INFO -     success!

mhkit/acoustics/__init__.py

@@ -1,17 +1,17 @@
 """
 The passive acoustics module provides a set of functions
-for analyzing and visualizing passive acoustic monitoring 
+for analyzing and visualizing passive acoustic monitoring
 data deployed in water bodies. This package reads in raw
-*.wav* files and conducts basic acoustics analysis and 
+*.wav* files and conducts basic acoustics analysis and
 visualization.
 
 To start using the module, import it directly from MHKiT:
 ``from mhkit import acoustics``. The analysis functions
-are available directly from the main import, while the 
-I/O and graphics submodules are available from 
+are available directly from the main import, while the
+I/O and graphics submodules are available from
 ``acoustics.io`` and  ``acoustics.graphics``, respectively.
-The base functions are intended to be used on top of the I/O submodule, and 
-include functionality to calibrate data, create spectral densities, sound 
+The base functions are intended to be used on top of the I/O submodule, and
+include functionality to calibrate data, create spectral densities, sound
 pressure levels, and time or band aggregate spectral data.
 """
 

mhkit/acoustics/analysis.py

@@ -337,7 +337,7 @@ def sound_pressure_spectral_density_level(spsd: xr.DataArray) -> xr.DataArray:
 
 
 def _validate_method(
-    method: Union[str, Dict[str, Union[float, int]]]
+    method: Union[str, Dict[str, Union[float, int]]],
 ) -> Tuple[str, Optional[Union[float, int]]]:
     """
     Validates the 'method' parameter and returns the method name and its argument (if any)

mhkit/acoustics/graphics.py

@@ -1,6 +1,6 @@
 """
-This submodule provides essential plotting functions for visualizing passive acoustics 
-data. The functions allow for customizable plotting of sound pressure spectral density 
+This submodule provides essential plotting functions for visualizing passive acoustics
+data. The functions allow for customizable plotting of sound pressure spectral density
 levels across time and frequency dimensions.
 
 Each plotting function leverages the flexibility of Matplotlib, allowing for passthrough
@@ -11,12 +11,12 @@
 -------------
 1. **plot_spectrogram**:
 
-   - Generates a spectrogram plot from sound pressure spectral density level data, 
+   - Generates a spectrogram plot from sound pressure spectral density level data,
      with a logarithmic frequency scale by default for improved readability of acoustic data.
 
 2. **plot_spectra**:
 
-   - Produces a spectral density plot with a log-transformed x-axis, allowing for clear 
+   - Produces a spectral density plot with a log-transformed x-axis, allowing for clear
      visualization of spectral density across frequency bands.
 """
 

mhkit/acoustics/io.py

@@ -1,7 +1,7 @@
 """
 This submodule provides input/output functions for passive acoustics data,
 focusing on hydrophone recordings stored in WAV files. The main functionality
-includes reading and processing hydrophone data from various manufacturers 
+includes reading and processing hydrophone data from various manufacturers
 and exporting audio files for easy playback and analysis.
 
 Supported Hydrophone Models
@@ -14,28 +14,28 @@
 
 1. **Data Reading**:
 
-   - `read_hydrophone`: Main function to read a WAV file from a hydrophone and 
-     convert it to either a voltage or pressure time series, depending on the 
+   - `read_hydrophone`: Main function to read a WAV file from a hydrophone and
+     convert it to either a voltage or pressure time series, depending on the
      availability of sensitivity data.
 
-   - `read_soundtrap`: Wrapper for reading Ocean Instruments SoundTrap hydrophone 
+   - `read_soundtrap`: Wrapper for reading Ocean Instruments SoundTrap hydrophone
      files, automatically using appropriate metadata.
 
-   - `read_iclisten`: Wrapper for reading Ocean Sonics icListen hydrophone files, 
-     including metadata processing to apply hydrophone sensitivity for direct 
+   - `read_iclisten`: Wrapper for reading Ocean Sonics icListen hydrophone files,
+     including metadata processing to apply hydrophone sensitivity for direct
      sound pressure calculation.
 
 2. **Audio Export**:
 
-   - `export_audio`: Converts processed sound pressure data back into a WAV file 
+   - `export_audio`: Converts processed sound pressure data back into a WAV file
      format, with optional gain adjustment to improve playback quality.
 
 3. **Data Extraction**:
 
-   - `_read_wav_metadata`: Extracts metadata from a WAV file, including bit depth 
+   - `_read_wav_metadata`: Extracts metadata from a WAV file, including bit depth
      and other header information.
 
-   - `_calculate_voltage_and_time`: Converts raw WAV data into voltage values and 
+   - `_calculate_voltage_and_time`: Converts raw WAV data into voltage values and
      generates a time index based on the sampling frequency.
 """
 

mhkit/dolfyn/adv/clean.py

@@ -1,5 +1,4 @@
-"""Module containing functions to clean data
-"""
+"""Module containing functions to clean data"""
 
 import warnings
 import numpy as np