DATA PRODUCT SPECIFICATION FOR FAST DISSOLVED OXYGEN
Contents
1. OCEAN OBSERVATORIES INITIATIVE DATA PRODUCT SPECIFICATION FOR FAST DISSOLVED OXYGEN Version 1 02 Document Control Number 1341 00521 2014 03 06 Consortium for Ocean Leadership 1201 New York Ave NW 4 Floor Washington DC 20005 www OceanLeadership org in Cooperation with University of California San Diego University of Washington Woods Hole Oceanographic Institution Oregon State University Scripps Institution of Oceanography Rutgers University Data Product Specification for Fast Dissolved Oxygen Document Control Sheet Version Date Description Author 0 01 2012 12 16 Initial Release M Vardaro 0 02 2013 02 07 Incorporates comments from Focused M Vardaro Review 0 03 2013 03 07 Incorporates comments from Formal M Vardaro Review and adds final test data set to section 4 6 1 00 2013 03 13 Initial Release E Griffin 1 01 2013 08 29 Updates to referenced TEOS 10 code M Vardaro 1 02 2014 03 06 Updates to include frequency output M Vardaro Ver 1 02 1341 00521 Data Product Specification for Fast Dissolved Oxygen Signature Page This document has been reviewed and approved for release to Configuration Management OOl Senior Systems Engineer Date 2014 03 07 This document has been reviewed and meets the needs of the OOI Cyberinfrastructure for the purpose of coding and implementation f VAC 4 OOI CI Signing Authority b gt Date 2013 032. freq Intermediate DO ml l DO umol kg 34 1145 15 5257 60 520 4354 5 89891032167396 256 974348631580 34 2845 15 3317 72 580 4143 5 56780727769487 242 509215041926 33 2464 11 9239 31 420 4583 6 76187243958794 294 548757813511 33 5524 12 8940 70 820 4476 6 458117534861 281 302611659343 Ver 1 02 1341 00521 Page 10 of 11 Data Product Specification for Fast Dissolved Oxygen 33 5619 12 9011 74 870 4481 6 46897458201929 281 773833754618 33 2512 11 9350 29 330 4591 6 77275996877815 295 022573240991 33 2609 11 9715 30 950 4575 6 73969994032525 293 582249046689 33 2716 12 0110 43 580 4574 6 74263221709132 293 709591753566 33 4191 12 4553 65 370 4545 6 64102027182035 289 274637555853 33 2710 11 9932 29 460 4578 6 74036293148305 293 610068502014 33 2808 12 0196 31 030 4572 6 72675872808420 293 016695107650 33 5483 12 8647 74 570 4505 6 51674462650798 283 855524405738 33 5424 12 8448 75 070 4383 6 30302843255881 274 546683447082 33 3458 12 2084 57 920 4555 6 68981312176670 291 402846954730 0 0000 12 0996 42 980 4569 8 28303866101280 370 109515168768 37 7843 10 1230 42 980 4023 10 78098598783980 467 353919671818 35 7594 0 0000 42 980 4569 8 95549253591715 388 785846175276 33 3313 12 0996 0 000 4569 6 68181215593754 291 052144126035 33 3132 12 0996 42 980 0 1 512520
3. mlo nlo size long west find long lt 0 if isempty Iwest long Ilwest long Iwest 360 end if mlo 1 amp nlo 1 long is a scalar fill to size of SP long long ones size SP elseif ns nlo amp mlo 1 long is a row vector long long ones 1 ms copy down each column elseif ms mlo amp nlo 1 long is a column vector long long ones 1 ns copy across each row elseif ns mlo amp nlo 1 long is a transposed row vector long long transposed then long long ones 1 ms copy down each column elseif ms nlo amp mlo 1 long is a transposed column vector long long transposed then long long ones 1 ns copy down each column elseif ms mlo amp ns nlo ok else error gsw_SA_from_SP Inputs array dimensions arguments do not agree end if if ms SP SP Ver 1 02 1341 00521 Appendix Page A 3 Data Product Specification for Fast Dissolved Oxygen p p lat lat long long transposed 1 else transposed 0 end lout_of_range find p lt 100 amp SP gt 120 SP lout_of_range NaN lout_of_range find p gt 100 amp SP gt 42 SP lout_of_range NaN Inan find abs SP 99999 abs SP 999999 SP Inan NaN Inan find abs p 99999 abs p 999999 p Inan NaN Inan find abs long 9999 abs long 99999 long Ina
4. profiler moving at 0 5 m s operating 48 times per day assumes that a CTD profile is taken on both down and up casts and profiler is operating continuously for 365 days 3 5 10 samples 4 6 Code Verification and Test Data Set The code will be verified using the test data set provided which contains inputs and their associated correct outputs Cl will verify that the code is correct by checking that the output generated using the test data inputs is identical to the test data density output SBE 43 Test Data Set COEFFICIENTS Soc 0 4396 Voffset 0 5186 Tau20 5 08 A 3 1867e 003 B 1 7749e 004 C 3 5718e 006 E nominal 0 036 NOMINAL DYNAMIC COEFFICIENTS D1 1 92634e 4 D2 4 64803e 2 DOFST Voltage Test Data Intermediate do_raw salinity temp pressure lat lon DO ml l DO umol kg ol oo 00 0 0 50 0 145 0 2 332525266 104 1869283 Ver 1 02 1341 00521 Page 9 of 11 Data Product Specification for Fast Dissolved Oxygen 6798 33 4 30 1 307 5 42 0 42 0 0 000797115 0 03494869 16384 31 2 30 3 201 2 39 0 70 5 1 412078813 61 89990653 32768 20 1 10 1 5 2 60 0 39 0 5 934280027 261 0228351 65535 35 2 20 2 112 1 45 0 125 0 10 06589881 438 6325206 0 35 2 20 2 5 2 60 0 39 0 1 149671963 50 09861089 6798 0 0 30 3 307 5 39 0 70 5 0 000125639 0 005635974 16384 3
5. step 1 output in situ Temperature t L1 input and sea pressure p L1 input pot_rho_t_exact gsw_pot_rho_t_exact SA t p p_ref See Appendix A 2 for example code Step 4 Oxygen solubility Oxsol is calculated by the equations Ts In 298 15 T 273 15 T Oxsol T S exp AO A1 Ts A2 Ts 2 A3 Ts 3 A4 Ts 4 A5 Ts 5 S BO B1 Ts B2 Ts 42 B3 Ts 3 CO S 2 where Oxsol T S oxygen saturation value volume of oxygen gas at standard temperature and pressure conditions STP absorbed from humidity saturated air at a total pressure of one atmosphere per unit volume of the liquid at the temperature of measurement ml l S practical salinity using the L2 PRACSAL data product T in situ water temperature C AO 2 00907 A1 3 22014 A2 4 0501 A3 4 94457 A4 0 256847 A5 3 88767 BO 0 00624523 B1 0 00737614 B2 0 010341 B3 0 00817083 CO 0 000000488682 Step 5 Fast dissolved oxygen is calculated by the function described in section 3 2 with the derivative term removed by setting Tau 0 to prevent amplification of residual noise Oxygen mL L Soc V Voffset Oxsol T S 10 A T B T 2 C T 3 e E P K This function is the same for 43F frequency data but with F and Foffset in place of V and Voffset Step 6 The oxygen concentration is converted from mL L into micromole Kg by the function Oxygen micromo
6. 0450 256 7111 133 Hz e Internally mounted strain gauge pressure pppppp 0C14C1 791745 decimal Strain gauge pressure A D counts 791745 e Internally mounted strain gauge temperature compensation vvvv 7D82 32 130 decimal Strain gauge temperature 32 130 13 107 2 4514 volts e First external voltage vvvv 0305 773 decimal voltage 773 13 107 0 0590 volts e Second external voltage vvvv 0594 1428 decimal voltage 1428 13 107 0 1089 volts e Time ssssssss 0EC4270B 247 736 075 decimal seconds since January 1 2000 247 736 075 Profiling Mode Input Format Output from the SeaBird 52 MP profiling CTD that will pass through the data from the SBE 43F Dissolved Oxygen sensor is a four character hex code 0000 as per this example from the SBE 52 Manual NOTE in profiling mode oxygen data is output as frequency Hz and the conversion equation will use F and Foffset in place of V and Voffset Example example scan ccccctttttpppppoooo0 5C98D0E2D628E8E3056 e Conductivity ccccc 5C98D 379277 decimal conductivity mmho cm 379277 10 000 0 5 37 4277 e Temperature ttttt OE2D6 58070 decimal temperature C ITS 90 58070 10 000 5 0 8070 e Pressure ppppp 28E8E 167566 decimal pressure decibars 167566 100 10 e Oxygen 0000 3056 12374 decimal oxygen Hz 12374 4 3 Processing Flow The specific steps necessary to creat
7. 1 00521 Appendix Page A 5 Data Product Specification for Fast Dissolved Oxygen A 2 Potential Density function pot_rho_t_exact gsw_pot_rho_t_exact SA t p p_ref gsw_pot_rho_t_exact potential density W a 5 5 5 5 5 5 5555555555 SSS SSS SSS SSS SSS SSS SSS SSS 5S5S USAGE pot_rho_t_exact gsw_pot_rho_t_exact SA t p p_ref DESCRIPTION Calculates potential density of seawater Note This function outputs potential density not potential density anomaly that is 1000 kg m 3 is not subtracted INPUT SA Absolute Salinity g kg t in situ temperature ITS 90 degC p sea pressure dbar i e absolute pressure 10 1325 dbar p_ref reference pressure dbar i e reference absolute pressure 10 1325 dbar SA amp t need to have the same dimensions p amp p_ref may have dimensions 1x1 or Mx1 or 1xN or MXN where SA amp t are MxN OUTPUT pot_rho_t_exact potential density not potential density anomaly kg m 3 AUTHOR David Jackett Trevor McDougall and Paul Barker help teos 10 org VERSION NUMBER 3 02 15th November 2012 REFERENCES IOC SCOR and IAPSO 2010 The international thermodynamic equation of seawater 2010 Calculation and use of thermodynamic properties Intergovernmental Oceanographic Commission Manuals and Guides No 56 UNESCO English 196 pp Avail
8. 1 2 30 1 201 2 45 0 125 0 10 82518961 475 5984302 32768 20 1 0 0 0 0 50 0 145 0 7 744491469 340 3897211 65535 33 4 10 1 112 1 42 0 42 0 12 49523919 544 0600381 0 35 2 20 2 5 2 50 0 145 0 1 149671963 50 09857466 6798 0 0 30 3 0 0 39 0 70 5 0 000121139 0 005434191 16384 20 1 10 1 112 1 60 0 39 0 2 2205184 97 67068802 32768 33 4 0 0 307 5 45 0 125 0 7 347649726 319 5738329 65535 31 2 30 1 201 2 42 0 42 0 66 32586768 2914 002444 0 33 4 30 1 112 1 60 0 39 0 7 415682793 325 155281 6798 35 2 20 2 5 2 45 0 125 0 0 000120053 0 005231489 16384 31 2 0 0 0 0 42 0 42 0 2 645019264 115 240647 32768 20 1 10 1 201 2 50 0 145 0 6 083964669 267 6054819 65535 0 0 30 3 307 5 39 0 70 5 10 39697952 466 3908327 0 33 4 30 3 5 2 60 0 39 0 0 966429789 42 29682113 6798 31 2 0 0 0 0 45 0 125 0 0 000195837 0 008532408 16384 35 2 30 1 112 1 39 0 70 5 10 2787545 449 9501918 32768 20 1 10 1 201 2 42 0 42 0 6 083964669 267 6060633 65535 0 0 20 2 307 5 50 0 145 0 12 68706213 567 6400574 SBE 43F Test Data Set COEFFICIENTS Soc 2 9968e 04 adj Foffset 839 55 Tau20 1 72 A 4 1168e 003 B 2 4818e 004 C 3 8820e 006 E nominal 0 036 NOMINAL DYNAMIC COEFFICIENTS D1 1 92634e 4 D2 4 64803e 2 Lat 45 Long 125 DOFST Frequency Test Data salinity temp pressure
9. 13 Ver 1 02 1341 00521 Data Product Specification for Fast Dissolved Oxygen Table of Contents Tr ZADSUACE each et coh ATEON cali in ae TSAA A wat eae uc Bact a ce eects dail 2 Introduction 2 1 Author Contact Information 2 2 Metadata Information 2 3 Instruments 2 4 Literature and Reference DOCUMENTS ccccccccccccceeeeecescueceseeueueessueueseseuaeeeeaeaees 2 5 Terminology 3 e A ei AA Ge A ecole Wea es ee vn eee ed eA 3 1 Description 3 2 Mathematical Theory 3 3 Known Theoretical Limitations 3 4 Revision History 4 Implementation 4 1 Overview 4 2 Inputs 4 3 Processing Flow 4 4 Outputs 4 5 Computational and Numerical Considerations ccccscccesesseceeseseeeeessteeeeseaes 4 6 Code Verification and Test Data Set ccccccccsccceseneeeeeseneeeeeeseeeesesneeeeesteeeeeseaas Appendix A Example Code is in iiaeie nanat an aea aaaea atea aer natia iaeiaiai Appendix B Appendix C Ver 1 02 Output Accuracy Sensor Calibration Effects 1341 00521 Data Product Specification for Fast Dissolved Oxygen 1 Abstract This document describes the computation used to calculate the OOI Level 2 Fast Dissolved Oxygen core data product DOCONCEF which is calculated using an algorithm based on that of Owens and Millard 1985 that incorporates raw voltage data from the Sea Bird Electronics SBE 43 and 43F Dissolved Oxygen Sensor DOFST family of instruments along with L1 and L2 data produ
10. 2 1341 00521 Appendix Page A 7 Data Product Specification for Fast Dissolved Oxygen A 3 DOCONCF Sample Code function DO dofst_calc do_VorF VorF_offset Soc A B C E T P SP lat lon Description Conversion of SBE43 raw measurement voltage or frequency to dissolved oxygen concentration and applies a potential density correction from co located CTD data OOI L2 data product DOCONCF Usage DO dostf_calculation do_VorF VorF_offset Soc A B C E T P SP lat lon where DO corrected dissolved oxygen micro mole kg do_VorF Oxygen sensor voltage or frequency V or Hz WorF_offset Voltage or Frequency offset V or Hz Soc Oxygen signal slope A Residual temperature correction factor A B Residual temperature correction factor B C Residual temperature correction factor C E Pressure correction factor T TEMPWAT water temperature deg C see 1341 00010_Data_Product_Spec_TEMPWAT P PRESWAT water pressure dbar see 1341 00020 _Data_Product_Spec_PRESWAT SP PRACSAL practical salinity unitless see 1341 00040_Data_Product_Spec_PRACSAL lat lon latitude and longitude of the instrument degrees Author Mike Vardaro 2013 08 22 Get the potential density using the TEOS 10 toolbox SA gsw_SA_from_SP SP P lon lat pot_rho_t gsw_pot_rho_t_exact SA T P 0 Oxygen saturation value after Garcia and Gordon 1992 temp_K T 2
11. 341 00521 Appendix Page B 3 Data Product Specification for Fast Dissolved Oxygen Appendix C Sensor Calibration Effects Not Applicable for Level 2 L2 data products Ver 1 02 1341 00521 Appendix Page C 1
12. 46989329 65 8845095713829 33 3132 12 0996 42 980 841 0 00261229787546345 0 113790171971304 33 3132 12 0996 42 980 1000 0 289064271805584 12 5914710984794 33 3132 12 0996 42 980 2000 2 09064901350446 91 0674517683417 33 3132 12 0996 42 980 4000 5 69381849690220 248 019413108066 33 3132 12 0996 42 980 5000 7 49540323860107 326 495393777929 33 3132 12 0996 42 980 6000 9 29698798029994 404 971374447791 Ver 1 02 1341 00521 Page 11 of 11 Data Product Specification for Fast Dissolved Oxygen Appendix A Example Code A 1 Absolute Salinity from Practical Salinity USAGE SA in_ocean gsw_SA_from_SP SP p long lat DESCRIPTION Calculates absolute salinity from practical salinity Since SP is non negative by definition this function changes any negative input values of SP to be zero INPUT SP Practical Salinity PSS 78 unitless p sea pressure dbar i e absolute pressure 10 1325 dbar long longitude in decimal degrees 0 360 or 180 180 lat latitude in decimal degrees north 90 90 p lat amp long may have dimensions 1x1 or Mx1 or 1xN or MXN where SP is MXN OUTPUT SA Absolute Salinity g kg in_ocean 0 if long and lat are a long way from the ocean 1 if long and lat are in the ocean Note This flag is only set when the observation is well and truly on dry land often the warning flag is not set until one is several hundred kilometres
13. 73 15 Ts log 298 15 T temp_K Empirical constants AO 2 00907 A1 3 22014 A2 4 0501 A3 4 94457 A4 0 256847 A5 3 88767 BO 0 00624523 B1 0 00737614 B2 0 010341 B3 0 0081 7083 CO 0 000000488682 Oxsol exp A0 A1 Ts A2 Ts 42 A3 Ts 43 A4 Ts 44 A5 Ts 5 SP BO B1 Ts B2 Ts 42 B3 Ts 43 Ver 1 02 1341 00521 Appendix Page B 1 Data Product Specification for Fast Dissolved Oxygen CO SP 2 Intermediate step Dissolved Oxygen concentration in mL L DO_int Soc do_VorF VorF_offset Oxsol 1 0 A T B T 42 C T 43 exp E P temp_k Correct DO_int for Potential Density and convert to micromole Kg DO DO_int 44660 pot_rho_t Ver 1 02 1341 00521 Appendix Page B 2 Data Product Specification for Fast Dissolved Oxygen Appendix B Output Accuracy The DOCONCF accuracy requirement is stated as Upon initial deployment the instrument shall measure dissolved O concentrations with an accuracy within 2 of the value provided by a Winkler titration of a corresponding water sample lt L2 SR RQ 3495 L4 CG IP RQ 182 L4 RSN IP RQ 312 gt This measurement will be performed by the operator and logged with Cl prior to deployment Accuracy of the L2 Fast Dissolved Oxygen data product is dependent on the accuracy of the L1 input to the computation which for the SBE43 is 2 of saturation Ver 1 02 1
14. EE E oe E te ee Check variables and resize if necessary if nargin 4 error gsw_SA_from_SP Requires four inputs end if ms ns size SP mp np size p if mp 1 amp np 1 pis ascalar fill to size of SP p p ones size SP Ver 1 02 1341 00521 Appendix Page A 2 Data Product Specification for Fast Dissolved Oxygen elseif ns np amp mp 1 p is row vector p p ones 1 ms copy down each column elseif ms mp amp np 1 p is column vector p p ones 1 ns copy across each row elseif ns mp amp np 1 p is a transposed row vector p p transposed then p p ones 1 ms copy down each column elseif ms mp amp ns np ok else error gsw_SA_from_SP Inputs array dimensions arguments do not agree end if mla nla size lat if mla 1 amp nla 1 lat is a scalar fill to size of SP lat lat ones size SP elseif ns nla amp mla 1 lat is a row vector lat lat ones 1 ms copy down each column elseif ms mla amp nla 1 lat is a column vector lat lat ones 1 ns copy across each row elseif ns mla amp nla 1 lat is a transposed row vector lat lat transposed then lat lat ones 1 ms copy down each column elseif ms mla amp ns nla Ok else error gsw_SA_from_SP Inputs array dimensions arguments do not agree end if
15. able from http Awww TEOS 10 org See section 3 4 of this TEOS 10 Manual The software is available from http www TEOS 10 0rg Ver 1 02 1341 00521 Appendix Page A 6 Data Product Specification for Fast Dissolved Oxygen if nargin 4 error gsw_pot_rho_t_exact Requires four inputs end if ms ns size SA mt nt size t mp np size p if mt ms nt ns error gsw_pot_rho_t_exact SA and t must have same dimensions end if isscalar unique p_ref error gsw_pot_rho_t_exact The reference pressures differ they should be unique end if mp 1 amp np 1 p scalar fill to size of SA p p ones size SA elseif ns np amp mp 1 p is row vector p p ones 1 ms copy down each column elseif ms mp amp np 1 p is column vector p p ones 1 ns copy across each row elseif ns mp amp np 1 p is a transposed row vector p p transposed then p p ones 1 ms copy down each column elseif ms mp amp ns np ok else error gsw_pot_rho_t_exact Inputs array dimensions arguments do not agree end if if ms SA SA tat p p transposed 1 else transposed 0 end upr unique p_ref p_ref upr ones size SA pt gsw_pt_from_t SA t p p_ref pot_rho_t_exact gsw_rho_t_exact SA pt p_ref if transposed pot_rho_t_exact pot_rho_t_exact end end Ver 1 0
16. cts from the conductivity temperature and depth CTD family of instruments This document is intended to be used by OOI programmers to construct appropriate processes to create the L2 Fast Dissolved Oxygen data product 2 Introduction 2 1 Author Contact Information Please contact Michael Vardaro mvardaro coas oregonstate edu or the Data Product Specification lead DPS lists oceanobservatories org for more information concerning the computation and other items in this document 2 2 Metadata Information 2 2 1 Data Product Name The OOI Core Data Product Name for this product is DOCONCF The OOI Core Data Product Descriptive Name for this product is Fast Dissolved Oxygen 2 2 2 Data Product Abstract for Metadata The OOI Level 2 Fast Dissolved Oxygen core data product DOCONGCF is the oxygen concentration in micromoles per kg umol kg which is produced using raw voltage data from the Sea Bird Electronics SBE 43 or frequency data from the 43F Dissolved Oxygen Sensor DOFST family of instruments along with L1 and L2 data products from the conductivity temperature and depth CTD instrument to which the SBE 43 is attached 2 2 3 Computation Name Not required for data products 2 2 4 Computation Abstract for Metadata This computation computes the OOI Level 2 Fast Dissolved Oxygen core data product which is calculated using an algorithm based on that of Owens and Millard 1985 that incorporates raw voltage data from t
17. e all calibrated and quality controlled data products for each OOl core instrument are described in the instrument specific Processing Flow documents DCN 1342 XXXXX These processing flow documents contain flow diagrams detailing all of the specific procedures data product and QC necessary to compute all levels of data products from the instrument and the order in which these procedures should be followed The processing flow for the Fast Dissolved Oxygen computation is as follows in Matlab syntax Step 1 Download and convert raw hex code data from SBE 43 to a decimal voltage value and divide by 13107 to produce a floating point number V in volts with four decimal places 4f If using an SBE 43F in profiling mode convert the hex code data to a decimal frequency value to produce a floating point number F in Hz with two decimal places 2f Step 2 Absolute salinity S4 is calculated from practical salinity Sp L2 input sea pressure p L1 input latitude lat L1 input metadata and longitude long L1 input metadata using the function SA in_ocean gsw_SA_from_SP SP p long lat where in_ocean is a flag indicating that the lat long is well inside the boundaries of dry land See Appendix A 1 for example code Ver 1 02 1341 00521 Page 7 of 11 Data Product Specification for Fast Dissolved Oxygen Step 3 Potential density is calculated using a reference pressure of 0 dbar p_ref 0 Absolute Salinity SA
18. ed until the following CTD measurement 4 2 Inputs Inputs are e LO Fast Dissolved Oxygen measurement counts representing volts or frequency in hex format e Calibration coefficients provided by SeaBird with instrument e DOFST time stamp Inputs from the attached or collocated CTD e L1 Temperature degrees C see 1341 00010 _DPS_TEMPWAT_OOl e L1 Pressure sea pressure dbar see 1341 00020 DPS_PRESWAT_OOl e L2 Practical Salinity PSS 78 unitless see 1341 00040 _ DPS _PRACSAL_OOl e Latitude and longitude where the input data was collected This information is the lat long of the mooring or profiler on which the instrument is fixed and is part of the metadata e CTD time stamp When available use Lib PRESWAT L1b TEMPWAT and L2b PRACSAL data products instead of L1a and L2a data products Moored Mode Input format Output from the SeaBird 16plus that will pass through the data from the SBE 43 Dissolved Oxygen sensor is a four character hex code vvvv 13 107 as per this example from the SBE Ver 1 02 1341 00521 Page 6 of 11 Data Product Specification for Fast Dissolved Oxygen 16plus Manual NOTE in this example the SBE 43 output is the First external voltage out of two example scan ttttttccccccppppppVVVVVVVVVVVVSSSSSSSS 0A53711BC7220C14C17D82030505940EC4270B e Temperature tttttt 0A5371 676721 decimal temperature A D counts 676721 e Conductivity 1BC722 1820450 decimal conductivity freq 182
19. he Instrument Application in the SAF for specifics of instrument locations and platforms 2 4 Literature and Reference Documents Garcia and Gordon 1992 Oxygen solubility in seawater Better fitting equations Limnology amp Oceanography 37 6 1307 1312 Owens W B and R C Millard Jr 1985 A new algorithm for CTD oxygen calibration J Physical Oceanography 15 621 631 Pawlowicz R 2010 What every oceanographer needs to know about TEOS 10 The TEOS 10 Primer Thermodynamic Equation Of Seawater 2010 TEOS 10 website http www teos 10 org Sea Bird Electronics Inc 2011 SBE 43 User Manual Bellevue WA Sea Bird Electronics Inc 2013 SBE 52 MP Moored Profiler CTD and Optional DO Sensor User s Manual Bellevue WA Sea Bird 2009 SBE 16p us V2 SEACAT User s Manual Manual Version 005 2 5 Terminology 2 5 1 Definitions The following terms are defined here for use throughout this document Definitions of general OOI terminology are contained in the Level 2 Reference Module in the OOI requirements database DOORS Potential Density pot_rho_t Potential density of seawater calculated using Absolute salinity in situ temperature sea pressure and a reference pressure p_ref of 0 dbar Practical Salinity Sp The measure of salinity defined by the Practical Salinity Scale 1978 PSS 78 Practical Salinity is a unitless quantity that is approximately equivalent to the mass fraction of dissolved solu
20. he Sea Bird Electronics SBE 43 or frequency data from the 43F Dissolved Oxygen Sensor family of instruments along with L1 Water Temperature TEMPWAT L1 Pressure Depth Data Product PRESWAT L2 Practical Salinity Data Product PRACSAL from the conductivity temperature and depth CTD family of instruments and latitude longitude from the platform metadata 2 2 5 Instrument Specific Metadata See Section 4 4 for instrument specific metadata fields that must be part of the output data 2 2 6 Data Product Synonyms Synonyms for this data product are Oxygen concentration Ver 1 02 1341 00521 Page 1 of 11 Data Product Specification for Fast Dissolved Oxygen 2 2 7 Similar Data Products Similar products that this data product may be confused with are DOCONCS Stable Dissolved Oxygen which is derived from the DOSTA Aanderaa Optode family of instruments Other measurements of oxygen concentration use different units mI L saturation but the current convention is to use the units described here micromoles per kg umol kg 2 3 Instruments For information on the instruments from which the L2 Fast Dissolved Oxygen core data product inputs are obtained see the DOFST Processing Flow document DCN 1342 00521 This document contains information on instrument class and make model it also describes the flow of data from the DOFST through all of the relevant QC calibration and data product computations and procedures Please see t
21. ients Sensor time constant tau T P at 20 C 1 atmosphere 0 PSU tau20 slope term in calculation of tau T P Temperature and pressure correction factors in D1 D2 calculation of tau T P 44660 Conversion constant for oxygen micromole DO L Oxygen saturation value after Garcia and Gordon Oxsol T S 1992 Time derivative of SBE 43 output oxygen signal volts second If tau is set to zero as recommended the derivative is ealcuiaiea OV dt removed from the equation aya alg Sensor time constant at temperature and pressure aus tau20 exp D1 P D2 T 20 This is recommended to be set to zero which removes tau T P the derivative from the equation K Absolute temperature in Kelvin Potential density of seawater calculated using Absolute pot_rho_t salinity in situ temperature and sea pressure Ver 1 02 1341 00521 Page 5 of 11 Data Product Specification for Fast Dissolved Oxygen 3 3 Known Theoretical Limitations The derivative term tau T P 5V dt function is used to improve the response of the measured signal in regions of large oxygen gradients However this term also amplifies residual noise in the signal especially in deep water and in some situations this negative consequence overshadows the gains in signal responsiveness It is recommended to set Tau 0 deleting the entire derivative term from the equation for calculated oxygen Response time of the SBE 43 and 43F sensor is variable and temperature de
22. in decimal degrees north 90 90 p lat amp long may have dimensions 1x1 or Mx1 or 1xN or MXN where SP is MXN OUTPUT SA Absolute Salinity g kg in_ocean 0 if long and lat are a long way from the ocean 1 if long and lat are in the ocean Note This flag is only set when the observation is well and truly on o dry land often the warning flag is not set until one is several o hundred kilometres inland from the coast o AUTHOR o David Jackett Trevor McDougall amp Paul Barker help_gsw csiro au VERSION NUMBER 3 0 31st May 2011 o REFERENCES IOC SCOR and IAPSO 2010 The international thermodynamic equation of seawater 2010 Calculation and use of thermodynamic properties Intergovernmental Oceanographic Commission Manuals and Guides No 56 UNESCO English 196 pp Available from http Awww TEOS 10 org See section 2 5 and appendices A 4 and A 5 of this TEOS 10 Manual McDougall T J D R Jackett and F J Millero 2010 An algorithm for estimating Absolute Salinity in the global ocean Submitted to Ocean Science A preliminary version is available at Ocean Sci Discuss 6 215 242 http www ocean sci discuss net 6 215 2009 osd 6 215 2009 print pdf The software is available from http Awww TEOS 10 org W a 5 5 5 5 5 5 5 5 5 5 55 55 5 5 55555555 555555555555 5555555555555 555555 55 5 L RL aL zL TAE E E EE
23. ined here for use throughout this document Oxygen Dissolved oxygen concentration micromole kg T CTD Temperature C P CTD Pressure decibars S CTD Salinity psu V SBE 43 temperature compensated output oxygen signal volts F SBE 43F temperature compensated output oxygen signal frequency Soc Oxygen signal slope Voffset Voltage at zero oxygen signal Foffset Frequency at zero oxygen signal 43F only A B C Residual temperature correction factors E Pressure correction factor tau20 Sensor time constant tau T P at 20 C 1 atmosphere 0 PSU slope term in calculation of tau T P D1 D2 Temperature and pressure correction factors in calculation of tau T P Oxsol T S Oxygen saturation value after Garcia and Gordon 1992 dV dt Time derivative of SBE 43 output oxygen signal volts second OF dt Time derivative of SBE 43 output oxygen signal frequency second tau T P Sensor time constant at temperature and pressure tau20 exp D1 P D2 T 20 K Absolute temperature K T 273 15 pot_rho_t Potential density of seawater calculated using Absolute salinity in situ temperature and sea pressure p_ref Reference pressure in this case 0 dbar Ver 1 02 1341 00521 Page 3 of 11 Data Product Specification for Fast Dissolved Oxygen 3 Theory 3 1 Description Sea Bird uses an algorithm based on that of Owens and Millard 1985 to convert SBE 43 oxygen sensor voltage data or 43F frequency data to oxygen c
24. inland from the coast AUTHOR Trevor McDougall Paul Barker amp David Jackett VERSION NUMBER 3 0 23rd May 2011 REFERENCES IOC SCOR and IAPSO 2010 The international thermodynamic equation of seawater 2010 Calculation and use of thermodynamic properties Intergovernmental Oceanographic Commission Manuals and Guides No 56 UNESCO English 196 pp Available from the TEOS 10 web site See section 2 5 and appendices A 4 and A 5 of this TEOS 10 Manual McDougall T J D R Jackett and F J Millero 2010 An algorithm for estimating Absolute Salinity in the global ocean Submitted to Ocean Science A preliminary version is available at Ocean Sci Discuss 6 215 242 http www ocean sci discuss net 6 215 2009 osd 6 215 2009 print pdf function SA in_ocean gsw_SA_from_SP SP p long lat gsw_SA_from_SP Absolute Salinity from Practical Salinity Se USAGE SA in_ocean gsw_SA_from_SP SP p long lat DESCRIPTION Calculates Absolute Salinity from Practical Salinity Since SP is non negative by definition this function changes any negative input Ver 1 02 1341 00521 Appendix Page A 1 Data Product Specification for Fast Dissolved Oxygen values of SP to be zero INPUT SP Practical Salinity PSS 78 unitless p sea pressure dbar i e absolute pressure 10 1325 dbar long longitude in decimal degrees 0 360 or 180 180 lat latitude
25. le Kg Oxygen ml l 44660 pot_rho_t_exact Step 7 Perform the necessary QC steps as outlined in the processing flow document 4 4 Outputs The outputs of the Fast Dissolved Oxygen computation are Ver 1 02 1341 00521 Page 8 of 11 Data Product Specification for Fast Dissolved Oxygen e Oxygen concentration in umol kg as a floating point number with two decimal places 2f The metadata that must be included with the output are e The source of the PRACSAL TEMPWAT and PRESWAT inputs which should be from the CTD to which the DOFST instrument is attached e The interpolated PRACSAL TEMPWAT and PRESWAT measurements used to perform the calculation e Location lat long e Time See Appendix D for a discussion of the accuracy of the output 4 5 Computational and Numerical Considerations 4 5 1 Numerical Programming Considerations There are no numerical programming considerations for this computation No special numerical methods are used 4 5 2 Computational Requirements L2 PRACSAL L1 TEMPWAT and L1 PRESWAT Data Products must be available from the attached CTD instrument as well as the timestamp information Assuming we are reprocessing the data upon recovery of the various assets and that one sample is a single data point from any Fast Dissolved Oxygen sensor attached to a profiling CTD and example number of samples are as follows e For a deep profiler on RSN or Endurance 1 sample second for a 1000m profile with a
26. n NaN Inan find abs lat 9999 abs lat 99999 lat Inan NaN if isempty find p lt 1 5 p gt 12000 error gsw_SA_from_SP pressure is out of range end if isempty find long lt 0 long gt 360 error gsw_SA_from_SP longitude is out of range end if isempty find abs lat gt 90 error gsw_SA_from_SP latitude is out of range end These few lines ensure that SP is non negative l_neg_SP find SP lt 0 if isempty l_neg_SP SP l_neg_SP 0 end locean find isnan SP p lat long SA nan size SP SAAR nan size SP in_ocean nan size SP The following function gsw_SAAR finds SAAR in the non Baltic parts of the world ocean Actually this gsw_SAAR look up table returns values of zero in the Baltic Sea since SAAR in the Baltic is a function of SP not space SAAR locean in_ocean locean gsw_SAAR p locean long locean lat locean SA locean 35 16504 35 SP locean 1 SAAR locean Ver 1 02 1341 00521 Appendix Page A 4 Data Product Specification for Fast Dissolved Oxygen Here the Practical Salinity in the Baltic is used to calculate the Absolute Salinity there SA_baltic locean gsw_SA_from_SP_Baltic SP locean long locean lat locean Ibaltic find isnan SA_baltic locean SA locean Ibaltic SA_baltic locean Ibaltic if transposed SA SA in_ocean in_ocean end end Ver 1 02 134
27. oncentration The Sea Bird algorithm incorporates a term related to the offset voltage frequency produced for zero oxygen signal In addition there is a third order polynomial that compensates for changes in sensitivity with temperature and an exponential term that compensates for changes in sensitivity with pressure 3 2 Mathematical Theory Sea Bird s modified algorithm has the following form SBE 43 User Manual Oxygen mL L Soc V Voffset tau T P 0V dt Oxsol T S 1 0 A T B T 2 C T 3 e E P K the red text tau and the derivative indicates that these parameters are removed from the equation if tau is set equal to zero as recommended by SeaBird and Oxygen micromole Kg Oxygen mL L 44660 micromole DO L pot_rho_t where Ver 1 02 1341 00521 Page 4 of 11 Data Product Specification for Fast Dissolved Oxygen Description Symbol Definition Computed Oxygen Dissolved oxygen concentration micromole kg T CTD Temperature degC P CTD Pressure dbars Input S CTD Salinity psu Parameters SBE 43 temperature compensated output oxygen V signal volts SBE 43F temperature compensated output oxygen F signal frequency Soc Oxygen signal slope Voffset Voltage at zero oxygen signal Foffset Frequency at zero oxygen signal 43F only A B C Residual temperature correction factors Calibration E Pressure correction factor Coeffic
28. pendent Response time varies from 7 seconds at 29 2 degC to 28 seconds at 1 7 degC SeaBird recommends a minimum pump time of 15 seconds for 15 degC and warmer water and reference the 1 curve in the SBE 43 user manual for colder water 3 4 Revision History No revisions to date 4 Implementation 41 Overview The L2 Fast Dissolved Oxygen computation is implemented using a third order polynomial expression SBE 43 User Manual which incorporates raw voltage frequency data from the SBE 43 43F Dissolved Oxygen Sensor along with L1 Water Temperature TEMPWAT L1 Pressure Depth Data Product PRESWAT L2 Practical Salinity Data Product PRACSAL from the CTD to which the DOFST instrument is connected and latitude longitude from the platform metadata This is followed by a subsequent conversion from ml l units to mol kg units This product is calculated using the potential density or pot_rho_t so as to correct for compression related changes in the volume and temperature of the parcel of water being measured Potential density is different from the OOI L2 DENSITY data product L2 DENSITY is computed using in situ temperature and pressure while potential density is calculated using a reference pressure of 0 dbar in situ temperature and Absolute Salinity Timing will be dealt with by interpolating the nearest CTD data to the time of sampling of the oxygen data using the INTERP1 QC algorithm 1341 10002 The oxygen measurement will be delay
29. te in seawater but is not interchangeable with Absolute Salinity Practical Salinity is an analogue for conductivity of seawater adjusted for temperature and pressure Ver 1 02 1341 00521 Page 2 of 11 Data Product Specification for Fast Dissolved Oxygen Absolute Salinity S4 Measure of absolute salinity adopted and defined jointly by the Intergovernmental Oceanographic Commission IOC International Association for the Physical Sciences of the Oceans IAPSO and the Scientific Committee on Oceanic Research SCOR in 2010 as part of the new standard for calculating the thermodynamic properties of seawater Units of Absolute Salinity are g kg the mass fraction of dissolved salts in seawater Absolute Salinity represents to the best available accuracy the mass fraction of dissolved solute in a sample of Standard Seawater of the same density as the observed sample Pawlowicz 2010 2 5 2 Acronyms Abbreviations and Notations General OOI acronyms abbreviations and notations are contained in the Level 2 Reference Module in the OOI requirements database DOORS The following acronyms and abbreviations are defined here for use throughout this document CTD Conductivity Temperature and Depth instrument SBE 43 moored mode voltage V output SeaBird 43 Dissolved Oxygen Sensor SBE 43F profiling mode frequency Hz output SeaBird 43F Dissolved Oxygen Sensor 2 5 3 Variables and Symbols The following variables and symbols are def
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