CalCOFI 1609SR (UNOLS SR1606) Science Verification "Shakedown" Cruise Prospectus

Platform: R/V Sally Ride
UNOLS Project Number: SR1606
CalCOFI Project Number: 1609SR
Project Title: CalCOFI Scientific Verification Cruise (CalCOFI SVC)
Project Dates: Sept 28 2016 to Sept 30 2016 30 Sep - 02 Oct 2016
Station Plan: Tentative Station Schedule (operations west of San Clemente Island required we work nearshore)
Prepared by: James R Wilkinson, Chief Scientist; abridged standard CalCOFI cruise instructions
Dated: Aug 29, 2016  28 Sep 2016
Please note that these instructions are subject to change and amendment as goals for this cruise are still being discussed.

I. Overview

  1. Brief Summary and Project Period:  Conduct station operations on CalCOFI Line 93 out to station 93.50 and verify the logistics required to successfully deploy all equipment that will be used on CalCOFI 1611SR. CalCOFI cruises typically survey the distributions and abundances of pelagic fish stocks, their prey, and their biotic and abiotic environments in the area of the California Current between San Diego, California and Avila Beach, California.
  2. Operating Area:  From station 93.3 26.7 off Del Mar, CA to station 93.50, possibly 93.55 ~110-130nm WSW.
  3. Summary of Objectives: Test the R/V Sally Ride infrastructure and capabilities to perform all aspects of work conducted on CalCOFI surveys.
    1. Acoustics - continuously sample multi-frequency acoustic backscatter using the Simrad EK80. The data is typically used to estimate the distributions and abundances of coastal pelagic fishes (e.g., sardine, anchovy, and mackerel), and krill species.
    2. ADCP - continuously collect ADCP data, synced with EK80 acoustics for current structure down to ~500m
    3. MET or equivalent underway integrated data logging system
      1. Continuously sample sea-surface temperature, salinity, and chlorophyll-a using a thermosalinometer. These data are used to estimate the physical oceanographic habitats for target species.
      2. Continuously sample air temperature, barometric pressure, and wind speed and direction using an integrated weather station.
    4. CTD-Rosette casts at 9 stations - on the CTD conductive wire winch, sample profiles of seawater temperature, salinity, chlorophyll-a, nutrients, and phytoplankton using a CTD with water-sampling rosette and other instruments at prescribed stations. Measurements of extracted chlorophyll and phaeophytin will be obtained with a fluorometer. Nutrients samples may be collected and frozen for analysis ashore.
    5. Secchi disc - on the second/net winch, sample the light intensity in the photic zone using a standard secchi disk once per day in conjunction with a daytime CTD station. These data will be used on CalCOFI 1611SR to interpret the measurements of primary production.
    6. Pairovet Vertical Net Tow - on the second/net winch, sample the vertically integrated abundance of fish eggs using a Pairovet net at prescribed stations. These data will be used to quantify the abundances and distributions of fish eggs.
    7. Manta Neuston Tow - on the second/net winch,sample plankton using a Manta (neuston) net at prescribed stations. These data are used to estimate the distributions and abundances of ichthyoplankton species.
    8. Bongo Net Tow - on the second/net winch,sample plankton using a CalBOBL (CalCOFI Bongo Oblique) at prescribed stations. These data are used to estimate the distributions and abundances of ichthyoplankton and zooplankton species.
    9. LTER-Optional - PRPOOS Vertical Net Tow - on the second/net winch, sample plankton using a PRPOOS (Planktonic Rate Processes in Oligotrophic Ocean Systems net) at all prescribed CalCOFI stations on lines 90.0. These data will be used in analyses by the LTER (Long Term Ecological Research) project.
    10. pCO2 Continuous Underway Flow-through System - a self-contained pCO2/pH instrument will be mounted in the wet lab near an uncontaminated seawater source. These data are used to measure sea surface pCO2 and pH continously during the cruise.
    11. Marine Mammal Acoustics Array and Visual Operations - during daylight hours transits between station, a hydrophone is towed from an aft winch, typically brought by the Marine Mammal Acoustics Group (from SIO winch pool). Additionally, continuous visual observations of seabirds and mammals are conducted for the flying bridge or bridge wings. These data are used to estimate the distributions and abundances of seabirds and marine mammals.
    12. CANCELLED - Zooglider 'sail-by' calibration station: Dr. Mark Ohman requests 3 bongo tows with a 202-µm mesh net taken in the vicinity of the Zooglider, plus a CTD cast to 500 m with a few Chl-a samples, and EK80 data around the Zooglider
  4. Participating Institutions
    1. I.D.1 Southwest Fisheries Science Center (SWFSC)
    2. I.D.2 Scripps Institution of Oceanography (SIO)
  5. Administrative
    1. Points of Contacts:
      1. Chief Scientist: James R Wilkinson (858-822-0674); 9500 Gilman Dr, MC 0206, La Jolla, CA 92039-0206; This email address is being protected from spambots. You need JavaScript enabled to view it.
      2. Alternate Point-of-Contact: Jennifer Rodgers-Wolgast (858-534-2888); This email address is being protected from spambots. You need JavaScript enabled to view it.
      3. RV Sally Ride at-sea phone: 870773153565 or 870773409221; radio: monitors VHF 13 & 16;

 CALCOFI 1609SR/SR1606 STA PREDICTED SCHEDULE Ver. Date 29 Sep 2016 Del Mar Mooring sta #2          
Desired             transit     Work planned      
Lat Lon sta Proc.# ETA hrs on sta ETD to next St-Time Comment CTD Secchi Pairovet Manta Bongo
    MarFac 0 30-Sep-2016 08:00 0.00 30-Sep-2016 08:00 3.00 0.00 Est Bottom Dm        
32 57.4 117 18.3 93/26.7 1 30-Sep-2016 11:00 1.50 30-Sep-2016 12:30 0.75 1.50 70m ~60m X X X X
32 55.8 117 19.0 DM Mooring 2 30-Sep-2016 13:15 0.75 30-Sep-2016 14:00 0.75 0.75 100m ~90m        
32 54.8 117 23.7 93/28 3 30-Sep-2016 14:45 1.50 30-Sep-2016 16:15 1.00 1.50 609m 515m X X X X
32 50.8 117 31.9 93/30 4 30-Sep-2016 17:15 1.50 30-Sep-2016 18:45 2.00 1.50 846m 515m   X X X
32 40.8 117 52.4 93/35 5 30-Sep-2016 20:45 1.50 30-Sep-2016 22:15 10.00 1.50 616m 515m   X X X
33 11.1 118 23.2 90/37 6 01-Oct-2016 08:15 1.50 01-Oct-2016 09:45 2.00 1.50 1177m; ~1167m X X X X
33 15.1 118 15.0 90/35 7 01-Oct-2016 11:45 1.50 01-Oct-2016 13:15 2.00 1.50 344m;  ~334m X X X X
33 25.1 117 54.3 90/30 8 01-Oct-2016 15:15 1.50 01-Oct-2016 16:45 0.75 1.50 613m 515m X X X X
33 29.1 117 46.1 90/28 9 01-Oct-2016 17:30 1.00 01-Oct-2016 18:30 0.50 1.00 63m ~53m   X X X
33 29.7 117 44.8 90/27.7 10 01-Oct-2016 19:00 0.50 01-Oct-2016 19:30 12.00 0.50 SCCOOS 20m ~15m       X
San Diego Sea Buoy   02-Oct-2016 07:30 0.00                  
            Totals:   10            
            Time totals hrs 31.75 12.75            
CTD Processing Summary CalCOFI 1609SR CTD Preliminary Data
Download 1609SR CTD raw cast files zipped Download 1609SR Preliminary CTD + bottle data 
General CTD Notes - data acquisition notes, logistics, processing - see below.
Please note that these regressions are generated from preliminary CTD vs bottle data and will NOT be reprocessed since final bottle data will not be processed. This was a test cruise and minimal bottle samples were collected. CTD sensor data are good and have been processed normally. Both primary & secondary sensor profiles vs bottle data have been generated and archived in the downloadable CTD+Bottle data files. These plots are under the "csv-plots\Primary" & "csv-plot\Secondary" subdirectories. Please note: if re-processing the CTD raw cast data, the RV Sally Ride deck unit used was misconfigured, offsetting the primary and secondary conductivity 0.73sec instead of 0.073sec. An offset of -0.657sec should be applied using AlignCTD to calculate salinity correctly. These will not be imported into the CalCOFI database or processed into final form. They are provided as an archive.
CTD sensor corrections derived by comparing CTD sensor data, 4sec average prior to bottle closure, to bottle samples
Dual T, S, & O2 Primary Sensor Secondary Sensor
Salinity offset (bottle - CTD salinity; > 350m only; Seabird SBE4) 0.0009 -0.0028
Oxygen ml/L (dual Seabird SBE43) y = 0.9793x +0.0519
R² = 0.9996
y = 0.9887x + 0.0428
R² = 0.9996
Oxygen umol/Kg (dual Seabird SBE43) y = 0.9802x +2.4261
R² = 0.9996
y = 0.9897x +2.0275
R² = 0.9996
Single sensors Linear Polynomial
Nitrate - ISUS 4sec ave voltage vs Bottle Nitrate (Satlantic MBARI-ISUS v2) Not deployed  
Fluorometer - linear & polynomial regressions

y = 7.0964x + 0.1209

R² = 0.5325

y = 16x2 + 1.6522x + 0.4331
R² = 0.5666

  Secondary CTD O2 Sensor vs Bottle O2
  Fluorometer Voltage vs Chlorophyll-a

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