OceanSITES User`s Manual
Contents
1. 1 2 March 2010 5 2 add geospatial_vertical_min and geospatial_vertical_min in the index file draft 1 7 useful links chapter created 1 2 April 2010 Last comments received from Matthias Lankhorst Nan Galbraith Derrick Snowden draft Hester Viola Andrew Dickson John Graybeal 1 6 information and contact on project office 2 2 1 update of Z axis 2 2 1 latitude longitude reference and EPSG coordinate reference 2 2 1 depth EPSG coordinate reference 2 2 1 note on latitude and longitude WGS84 datum 2 2 1 note on DEPTH reference 2 2 3 all attributes listed in the example 2 2 4 metadata variables sensors information calibrations 3 simplify metadata introduction 4 2 QC flag scale 6 not used comment 4 3 1 use DOXY_TEMP instead of TEMP_DOXY 4 4 4 new centres 4 6 update of OceanSITES catalogue 1 2 June 2010 Updates from 29 06 2010 webex meeting draft 2 1 remove For a mooring with a GPS receiver use LATITUDE of the same dimension as TIME and provide the actual location 2 2 add an optional array and network optional global attribute Allow multiple axes in a file e 2 remove Coordinate variables which describe the dimensions of a data set are limited to a single set of longitude latitude depth and time X Y Z and T dimensions in any single file If data from a reference station cannot all be put on to a single set of axes then separate files are crea2. TET 6 Glossary definitions This chapter gives a definition for the OceanSITES items described in this manual 6 1 Site An OceanSITES site is a defined geographic location where sustained oceanographic meteorological or other observations are made Example CIS is a site in the Central Irminger Sea Note A site should be thought of as a point in space i e a nominal position with a small area extent around it such that successive observations from anywhere within this area reasonably represent conditions at the nominal position for the major scientific questions that the observations address 6 2 Array An OceanSITES array is a grouping of sites based on a common and identified scientific question or on a common geographic location Example An IRMINGERSEA array would identify the sites CIS LOCO IRMINGERSEA and OOI IRMINGERSEA as sharing a common scientific interest and or geographic location Notes It is valid for a single site to belong to no one or multiple arrays Documenting the array is recommended only if it identifies commonalities beyond a single project or a single operating institution 6 3 Network An OceansSITES network is a grouping of sites based on common shore based logistics or infrastructure Example EuroSITES although technically a single project bundles multiple institutional efforts and connects otherwise remote sites to a degree that warrants calling it a network Notes It is valid for a
3. 122 5 OPERATING USA USA SIO NOAA PMEL WHOTS WHOTS HAWAII NDBC 51400 WHOI ngalbraith whoi edu WHOI aplueddemann whoi edu WHOI Hawaii Ocean Timeseries Station 22 750 157 900 OPERATING USA USA WHOI JKEO38N147E JKEO38N147E KUROSHIO NDBC 21210 JAMSTEC PLANNED ichikawah jamstec go jp JAMSTEC ichikawah jamstec go jp JAMSTEC Kuroshio Extension Observatory JKEO 38 000 146 500 OPERATING JAPAN JAMS n KFO22N146F KFO22N146F KIROSHIN NARE 2RAN1 PMFI nanl Fraitan nnaa anv PMFI Menhan F Crnnin nnaa anv Kurnshin Fxtensinn Ohservatany KEN 37 ANN 144 RAN OPFRATING LISA LSA NOAA PMFI n 4 For Help press F1 NUM 4 7 Reference table 7 sensor mount characteristics The lt PARAM gt sensor_mount attribute indicates the way a sensor is mounted on a mooring The following table lists the valid sensor_mount attribute values sensor_mount mounted_on_fixed_structure mounted_on_surface_buoy OceanSITES data management User s manual mounted_on_shipborne_fixed 4 8 Reference table 8 sensor orientation characteristics When appropriate the lt PARAM gt sensor_orientation attribute indicates the way a sensor is oriented on a mooring The following table lists the valid sensor_orientation attribute values sensor_orientation comment downward Example ADCP measuring from surface to bottom currents upward Example In line ADCP measuring currents towards the surface horizontal OceanSITES da
4. Required fixed value lt PARAM gt _QC long_name quality valid_min type byte Required fixed value flag valid_max type byte Required fixed value lt PARAM gt _QC conventions OceanSITES reference table 2 lt PARAM gt _QC _ FillValue 128 lt PARAM gt _QC valid_min 0 lt PARAM gt _QC valid_max 9 Char lt PARAM gt _DM TIME DEPTH This is the data mode lt PARAM gt _DM long_name method of Indicates if the data point is real time delayed mode or provisional data processing mode It is included when the dataset mixes modes for a single lt PARAM gt _DM conventions variable OceanSITES reference table 5 See note on data modes below and reference table 5 lt PARAM gt _DM lt flag_values R P long_name type char Required fixed value D M conventions type char Required fixed value lt PARAM gt _DM flag_meanings real flag_values type char Required fixed value time provisional delayed mode mixed flag_meanings type char Required fixed value lt PARAM gt _DM _ FillValue _ FillValue type char Required fixed value Float lt PARAM gt _UNCERTAINTY TIME Overall uncertainty of the data given in lt PARAM gt DEPTH See note on uncertainty below lt PARAM gt _UNCERTAINTY long_name long_name type char Required fixed value uncertainty _ FillValue type float Required lt PARAM gt _UNCERTAINTY _FillValue lt units t
5. uncertainty type float Overall measurement uncertainty if constant Cf note on uncertainty below accuracy type float Nominal sensor accuracy Cf note on uncertainty below precision type float Nominal sensor precision Cf note on uncertainty below resolution type float Nominal resolution of this data parameter cell_methods type char Specifies cell method as per CF convention Example TEMP cell_methods TIME point DEPTH point LATITUDE point LONGITUDE point Values are listed in table 2 2 DM_indicator Type char Data mode if constant as per reference table 5 Cf note on data modes below reference_scale type char For some measurements that are provided according to a standard reference scale specify the the reference scale with this optional attribute Example ITS 90 PSS 78 Byte lt PARAM gt _QC TIME DEPTH Quality flags for values of associated lt PARAM gt lt PARAM gt _QC flag_values 0 1 2 3 flag_values type byte Required fixed value 4 5 7 8 9 flag_meanings type char Required fixed value lt PARAM gt _QC flag_meanings no_qc_performed good_data probably_good_data The flag scale is specified in reference table 2 and is included in the bad_data_that_are_potentially_correctabl flag_meanings attribute e bad_data value_changed long_name type char fixed value nominal_value interpolated_value conventions type char Required fixed value missing_value _ FillValue type byte
6. all measurements in the attributes of each variable lt PARAM gt Cf lt PARAM gt QC_procedure attribute description in section 3 2 3 Code Meaning o No QC performed OceanSITES data management User s manual 1 Ranges applied bad data flagged Data interpolated Sensor malfunctioning data possibly useful Data manually reviewed e Data verified against model or other contextual information Other QC process applied 4 2 2 Reference table 2 2 cell methods From NetCDF Climate and Forecast CF Metadata Conventions Version 1 2 4 May 2008 In the Units column u indicates the units of the physical quantity before the method is applied Cell Method Units Description w pe peo 4 3 Reference table 3 OceanSITES parameter dictionary 4 3 1 Convention for parameter names standard names and units The parameter dictionary is is available on GDAC s ftp servers e Parameter names should start with a code based on SeaDataNet BODC parameter discovery vocabulary They are not strictly standardized however When necessary a parameter name has a suffix that designates secondary parameters The suffix starts with the character OceanSITES data management User s manual e The NetCDF standard_name attribute contains the standardized parameter name from CF conventions e The NetCDF units attribute are compliant with Udunits as implemented in the CF COARDS standards As the paramet
7. dimensions NetCDF dimensions provide information on the size of the data variables and additionally may tie spatial and temporal coordinates to data OceanSITES time series are limited to a single variable for three of the data dimensions time latitude and longitude multiple depth dimensions are permitted Requirements are described further in the section on coordinate OceanSITES data management User s manual variables Short names for OceanSITES dimension variables should be in upper case Example Comment TIME unlimited Number of time steps Example for a mooring with one value per day and a mission length of one year TIME contains 365 time steps DEPTH 5 Number of depth levels Example for a mooring with measurements at 0 25 10 50 100 and 200 meters DEPTH 5 LATITUDE LATITUDE 1 Dimension of the LATITUDE coordinate variable LONGITUDE LONGITUDE 1 Dimension of the LONGITUDE coordinate variable POSITION POSITION 1 Dimension of the POSITION_QC variable 2 2 Global attributes The global attribute section of a NetCDF file contains metadata that describes the contents of the file overall and allows for data discovery All fields should be human readable and should be of character type not numeric even if the information content is a number OceanSITES recommends that all of these attributes be used and contain meaningful information unless there are technical reasons rendering this impossible However files th
8. from the instruments after the mooring has been recovered on a ship Delayed mode data Data published after all calibrations and quality control procedures have been applied on the internally recorded or best available original data This is the best possible version of processed data OceanSITES data management User s manual Mixed This value is only allowed in the global attribute data _mode or in attributes to variables in the M form lt PARAM gt DM_ indicator It indicates that the file contains data in more than one of the above states In this case the variable s lt PARAM gt _DM specify which data is in which data mode 4 6 Reference table 6 OceanSITES sites catalog The OceanSITES catalogue is managed by the Project Office email projectoffice oceansites org An OceanSITES site and platforms have unique names provided by OceanSITES Project Office after agreement from the Principal Investigator and the OceanSITES Steering Team The Project Office ensures that platform_codes are unique among OceanSITES The WMO codes are requested to WMO by the DAC or the national contact with WMO The OceanSITES sites catalogue will be made available on GDACs ftp servers The following list is an extract from the catalogue e catalog 201004 UserManual csy WordPad File Edit View Insert Format Help Osa SRA 5B B SITE PLATFORM Network Array GDAC WMO_ID DAC DataManagerEmail DataManagementAgency
9. if the real time wind direction received by GDAC DAC is a wind to direction before GTS dissemination platform_message_reporting_ frequency The frequency of message reporting from buoy Required to DAC such as daily hourly or every 10min etc 3 2 OceanSITES Parameter and Sensor Information This section is to be used by PI to provide parameter and associated sensor information for each of the platform dataset files specified in section 2 If real time GPS tracking data are available use LATITUDE and LONGITUDE as the position parameters Please use one form for each parameter Name Value Required Optional OS 1 1 parameter valid parameter name in OceanSITES parameter dictionary as netCDF variable name Example TEMP sensor_vendor Name of the sensor vendor Desired Example PMEL sensor_sampling_period Period s in minutes when sampling occurs in one message Desired report from buoys typically in one hour Example Instantaneous sensor_sampling_ frequency Instantaneous or frequency in HZ or every 15 second etc Desired Example 1 per 10 min sensor_reporting_time UTC time represents middle beginning or end of sampling Optional periods indicate if sensor reporting time differs from the corresponding platform message reporting time Example Sensor reports at the top of the hour and every ten minutes after Data is transmitted once daily as a mean OceanSITES data management User s manual 93 4 Reference
10. provided in the attribute lt PARAM gt uncertainty if it is constant or in a variable of its own lt PARAM gt _UNCERTAINTY if it is not constant If uncertainty is given in either way the attribute lt PARAM gt accuracy is optional If it is impossible to estimate the overall measurement uncertainty it is required to define at least the attribute lt PARAM gt accuracy with the nominal sensor accuracy The attributes lt PARAM gt precision and lt PARAMS gt resolution are optional they contain the sensor precision and resolution if defined Note on data modes DM Data mode may be represented as a global attribute data_mode if all data is a single mode or as an attribute to a variable lt PARAM gt DM_ indicator if all data for lt PARAM is in a single mode If a parameter contains a mixture of modes these attributes should be set to M and the actual data modes should be represented by an extra variable lt PARAM gt _DM The values for the data modes are explained in reference table 5 Example for sea temperature measurements and associated quality flags Float TEMP TIME DEPTH TEMP standard_name sea_water_temperature TEMP units degree_Celsius TEMP _ FillValue 99999 f TEMP long_name sea water temperature in situ ITS 90 scale TEMP QC_indicator 1 TEMP QC_procedure 5 TEMP valid_min 2 0f TEMP valid_max 40 f TEMP comment TEMP sensor_depth 1 TEMP sensor_m
11. single site to belong to no one or multiple networks Documenting the network is recommended only if it identifies structures beyond a single project or a single operating institution 6 4 Platform An OceanSITES platform is an independently deployable package of instruments and sensors forming part of site It may be fixed to the ocean floor may float or may be self propelled Examples e CIS 1 a mooring in Central Irminger Sea e THETYS II a vessel that performs regular CTDs at DYFAMED site OceanSITES data management User s manual 34 6 5 Deployment An OceanSITES deployment is an instrumented platform performing observations for a period of time Changes to the instrumentation or to the spatial characteristics of the platform or its instruments constitute the end of the deployment Examples The CTD data for CIS 1 deployment performed in May 2009 200905 and are distributed as OS_CIS 1_200905_R_CTD nc file 6 6 Instrument An OceanSITES instrument is device that provides digital data output Examples CTD ADCP Meteorological Package 6 7 Sensor A device that measures environmental parameter but does not digitize data for transmission it needs to be connected to an instrument to produce a data stream that a computer can read Examples Transmissiometer Fluorometer Oxygen sensor OceanSITES data management User s manual
12. tables 4 1 Reference tables 1 data type and data code 4 1 1 Reference table 1 Data type The data_type global attribute should have one of the valid values listed here Data type OceanSITES metadata OceanSITES profile data OceanSITES time series data OceanSITES trajectory data 4 2 Reference table 2 Variable quality control flag scale The quality control flags indicate the data quality of the data values in a file and are normally assigned after quality control procedures have been performed These codes are used in the lt PARAM gt _QC variables to describe the quality of each measurement or in the attribute lt PARAM gt QC_indicator to describe the overall quality of the parameter Code Meaning Comment lO No QC was performed Probably good data 3 Bad data that are potentially These data are not to be used without scientific correction or re correctable calibration Bad data Data have failed one or more tests Value changed Data may be recovered after transmission error 7 Nominal value Data were not observed but reported Example an instrument target depth P Interpolated value Missing data may be interpolated from neighboring data in space or time a Missing value 4 2 1 Reference table 2 1 Overall quality control procedure indicator This table describes the quality procedures applied to all the measurement of a parameter These values are used as an overall quality indicator i e one summarizing
13. ERATING INDIA INDIA NIO CM EQCM3 76E CM EQCM3 76E RAMA TROPICAL INDIAN NDBC INCOIS pattabhi incois gov in INCOIS vsnmurty nio org 0 OOS moorings 0 000 76 000 OPERATING INDIA INDIA NIO RON80 5E RON80 5E RAMA TROPICAL INDIAN NDBC 23001 PMEL paul Freitag noaa gov PMEL michael j mcphaden noaa gov RAMA Central Eq 10 0 000 80 500 OPERATING USAVIN USA INDIA NOAA PMEL INCOIS R15N90E R15N90E RAMA TROPICAL INDIAN NDBC 23009 PMEL paul Freitag noaa gov PMEL michael mcphaden noaa gov RAMA Bay of Bengal 15 000 90 000 OPERATING USAVIN USAVINDIA NOAA PMELIINCOIS R0O8S67E R08S67E RAMA TROPICAL INDIAN NDBC 14040 PMEL paul Freitag noaa gov PMEL michael mcphaden noaa gov RAMA Thermocline Ridge 8 000 67 000 OPERATING USAVIN USA ASCLME PMEL CALCOFI 080 055 CALCOFI 080 055 CalCOFI SouthernCalifCurr NDBC NDBC PLANNED kbaker ucsd_edu SIO tkoslow ucsd edu California COFI 080 055 34 31666667 120 8016667 OPERATING USA USA SIO CALCOFI 080 080 CALCOFI 080 080 CalCOFI SouthernCalifCurr NDBC NDBC PLANNED kbaker ucsd edu SIO tkoslow ucsd edu California COFI 080 080 33 48333333 122 5333333 OPERATING USA USA SIO CALCOFI 090 090 CALCOFI 090 090 CalCOFI SouthernCalifCurr NDBC NDBC PLANNED kbaker ucsd edu SIO tkoslow ucsd edu California COFI 090 090 31 41833333 121 9833333 OPERATING USA USA SIO CCE 1 CCE 1 CCE SouthernCalifCurr NDBC NY NDBC mlankhorst ucsd_edu SIO usend ucsd edu California Current Ecosystem CCE 1 33 5
14. K EU NOCS STATION M OWSM EUROSITES IFREMER NORWAY PLANNED svein osterhus gfi_uib no Osterhus ngfso uib no OWS M Norwegian Sea 66 000 2 000 OPERATING NORWAY NORWAY TENATSO TENATSO ATMOS EUROSITES IFREMER EUROSITES PLANNED mred noc soton ac uk dwallace ifm geomar de TENATSO Cape Verde Atmosphere 16 800 24 900 OPERATING GERMANY GERMANY CAPEVERDE TENATSO TENATSO OCEAN EUROSITES IFREMER EUROSITES PLANNED mred noc soton ac uk dwallace ifm geomar de TENATSO Cape Verde Ocean Mooring 17 583 24 250 OPERATING GERMANY GERMANY CAPEVERDE W1M3A W1M3A EUROSITES IFREMER 61010 EUROSITES mred noc soton ac uk M3A boz ge issia cnr it W1 M3A Ligurian Sea ODAS Italia 1 43 813 9 125 OPERATING USA EU Italy CNR LOCO IRMINGSEA IRMINGSEA 1 LOCO Irminger Sea IFREMER NIOZ PLANNED aken nioz nl Irminger Sea 59 000 40 000 OPERATING USA LOCO MOVE1 MOVE1 MOVE TropicalAtlantic NDBC NDBC mlankhorst ucsd edu SIO IFM GEOMAR usend ucsd edu MOVE1 15 450 51 500 OPERATING GERMANY GERMANY USA IFMGEOMAR SIO MOVE3 MOVE3 MOVE TropicalAtlantic NDBC NDBC mlankhorst ucsd edu SIO IFM GEOMAR usend ucsd edu MOVE3 16 333 60 500 OPERATING GERMANY GERMANY USA FMGEOMAR SIO MOVE4 MOVE4 MOVE TropicalAtlantic NDBC NDBC mlankhorst ucsd edu SIO IFM GEOMAR usend ucsd edu MOVE4 16 333 60 617 OPERATING GERMANY GERMANY USA IFMGEOMAR SIO NTAS NTAS NTAS TropicalAtlantic NDBC 48401 WHOI ngalbraith whoi edu WHOI aplueddemann wh
15. NetCDF utilities e OceanSITES includes standard terms for the short name of both coordinate and data variables measurements e File names are created using a standard described in section 6 2 An OceanSITES data file contains measurements such as temperature and salinity continuously performed at different levels on a platform e g mooring as well as meteorological or other parameters recorded at the site derived variables associated with the site and complete location time and provenance information The requirements are drawn almost exclusively from the NetCDF Style Guide e Units are compliant with CF COARDS Udunits e The time parameter is encoded as recommended by COARDS and CF e Parameters are given standard names from the CF table e Where time is specified as an attribute the ISO8601 standard is used For more information on CF COARDS NetCDF Udunits and ISO8601 see e NetCDF http www unidata ucar edu software netcdf docs BestPractices html e Udunits http www unidata ucar edu software udunits e CF http cf pcmdi lInl gov e COARDS http www ferret noaa gov noaa_coop coop_cdf_profile html e JSO8601 http en wikipedia org wiki ISO_ 8601 Note on format version Since July 2010 the OceanSITES valid data format version is 1 2 The User s manual may be updated with clarifications recommendations additional optional attributes without changing the data format version 2 1 Data file
16. ProgramManagerEmail SITE_DESCRIPTION LAT LON STATUS COUNTRY AGENCY be BATS BHYDROS BERMUDA BERMUDA NDBC NY CCHDO PLANNED sdiggs ucsd_edu BIOS jerome aucan bios edu BATS Hydostation S 32 167 64 500 OPERATING BERMUDA BERMUDA BIOS CIS CIS 1 EUROSITES ANIMATE MERSEA Irminger Sea IFREMER 44478 EUROSITES mred noc soton ac uk IFM GEOMAR NOCS jkarstensen ifm geomar de CIS Central Irminger Sea 59 667 39 667 OPERATING USA GERMANY IF DYFAMED DYFAMED EUROSITES IFREMER EUROSITES coppola obs wifr fr VILLEFRANCHE coppola obs vifr fr OYFAMED 43 420 7 867 OPERATING USA EU France IRD f E1M3A E1M3A EUROSITES IFREMER NY EUROSITES mred noc soton ac uk M3A knittis hemr gr E1 M3A Cretan Sea POSEIDON 35 660 24 930 0OPERATING USA EU GREECE HCMR E2M3A E2M3A EUROSITES IFREMER NY EUROSITES mred noc soton ac uk M3A vcardin ogs trieste it E2 M3A Adriatic Sea 41 833 17 757 OPERATING USA EU ITALY OGSTrieste ESTOC ESTOC 1 EUROSITES ANIMATE MERSEA IFREMER 13471 EUROSITES mred noc soton ac uk NOCS andres iccm rcanaria es ESTOC Canary Islands 0 29 000 15 500 OPERATING USA EU RCANARIA PAP PAP 1 EUROSITES ANIMATE MERSEA IFREMER 62442 EUROSITES mred noc soton ac uk NOCS rsI noc soton ac uk PAP Porcupine Abyssal Plain 1 49 000 16 500 OPERATING UK EU NOCS PAP PAP 3 EUROSITES ANIMATE MERSEA IFREMER 62442 EUROSITES PLANNED mred noc soton ac uk rsi noc soton ac uk PAP Porcupine Abyssal Plain 3 49 000 16 500 OPERATING U
17. S_CIS 1_200905_R_CTD nc This file contains temperature and salinity data from the CIS 1 mooring from the EuroSITES project for the deployment performed in May 2009 OceanSITES data management User s manual 5 1 2 Metadata file naming convention OS_XXX_YYY_META zzz e OS OceanSITES prefix e XXX platform code e YYY deployment code e zzz metadata file suffix txt doc xml These metadata are for the corresponding data file s OS_XXX_YYY_T_ZZZ_PARTX nc Example e OS_CIS 1_200905_META xml This file contains the metadata of CIS 1 mooring for the deployment performed in May 2009 5 2 Index file for data files To allow for data discovery without downloading the data files themselves an index file is created at the GDAC level which lists all available data files and the location and time ranges of their data contents e The data index file is located at the root directory of the GDAC e The index file contains the list and a description of all data files available on the GDAC e There is a header section lines of which start with characters e The information sections are comma separated values e Each line contains the following information e file the file name beginning from the GDAC root directory e date_update the update date of the file YY YY MM DDTHH MI SSZ e start_date first date for observations YY YY MM DDTHH MI SSZ e end_date last date for observations YY YY MM DDTHH MI SSZ e souther
18. _gov in INCOIS pattabhi incois gov in NIOT MB23 12 940 74 720 OPERATING INDIA INDIA NIOT NDBP MB24 MB24 INCOIS NDBC 23098 INCOIS pattabhi incois gov in INCOIS pattabhi incois gov in NIOT MB24 8 700 78 230 OPERATING INDIA INDIA NIOT NDBP MB26 MB26 INCOIS NDBC 23494 INCOIS pattabhi incois_gov in INCOIS pattabhi incois gov in NIOT MB26 12 140 90 770 OPERATING INDIA INDIA NIOT NDBP 0B10 0B10 INCOIS NDBC 23101 INCOIS pattabhi incois gov in INCOIS pattabhi incois gov in NIOT OB10 15 500 69 280 OPERATING INDIA INDIA NIOT NDBP 0B12 0B12 INCOIS NDBC 23455 INCOIS pattabhi incois gov in INCOIS pattabhi incois gov in NIOT OB12 10 650 72 510 OPERATING INDIA INDIA NIOT MOZCHANNEL T1 MOZCHANNEL T1 LOCO IFREMER NIOZ PLANNED bruin nioz nl NIOZ rid nioz nl LOCO Mozambique Channel 1 17 000 40 000 OPERATING USA LOCO MOZCHANNEL T7 MOZCHANNEL T7 LOCO IFREMER NIOZ PLANNED bruin nioz nl NIOZ rid nioz nl LOCO Mozambique Channel 2 17 000 43 000 OPERATING USA LOCO CM EQCM3A 77E CM EQCM3A 77E RAMA TROPICAL INDIAN NDBC INCOIS pattabhi incois gov in INCOIS vsnmurty nio org I0 OOS moorings 0 000 77 000 OPERATING INDIA INDIA NIO CM EQCM2 83E CM EQCM2 83E RAMA TROPICAL INDIAN NDBC INCOIS pattabhi incois gov in INCOIS vsnmurty nio org O OOS moorings 0 000 83 000 OPERATING INDIA INDIA NIO CM EQCM1 93E CM EQCM1 93E RAMA TROPICAL INDIAN NDBC INCOIS pattabhi incois gov in INCOIS vsnmurty nio org O OOS moorings 0 000 93 000 OP
19. ard_name lt X gt lt PARAM gt units lt Y gt lt PARAMs gt _FillValue lt Y gt lt PARAMs gt coordinates lt x gt lt PARAM gt long_name Y lt PARAM gt QC_indicator lt X gt lt PARAM gt QC_procedure lt X gt lt PARAMs gt valid_min lt Y gt lt PARAMs gt valid_max lt Y gt lt PARAM gt comment lt Y gt lt PARAM gt sensor_depth lt Y gt lt PARAM gt sensor_mount lt X gt lt PARAMs gt sensor_orientation lt X gt lt PARAM gt sensor_name lt Y gt lt PARAM gt sensor_serial_number lt Y gt lt PARAM gt ancillary_variables lt Y gt lt PARAM3 gt uncertainty lt Y gt lt PARAM gt accuracy lt Y gt lt PARAMsS precision lt Y gt lt PARAMs gt resolution lt Y gt lt PARAM gt cell_methods lt X gt lt PARAM gt DM_indicator lt X gt lt PARAM gt reference_scale lt Y gt Comment lt PARAM gt names are defined in reference table 3 Examples TEMP PSAL DOXY These 3 attributes are mandatory standard_name units and _ FillValue The coordinates attribute is REQUIRED when a data variable does not have 4 dimensional coordinate variables in its definition These 11 attributes are highly desirables QC_indicator QC_procedure valid_min valid_max sensor_name uncertainty sensor_serial_number accuracy precision resolution DM_indicator The other attributes are
20. at do not at least contain the attributes listed as mandatory will not be considered OceanSITES compliant In OceanSITES global attribute names are in lower case letters Global attributes can be thought of as conveying five kinds of information e What what are the data in this dataset e Where the spatial coverage of the data e When the temporal coverage of the data e Who who produced the data e How how were the data produced and made available The global attributes specification follows the recommendations of Unidata NetCDF Attribute Convention for Dataset Discovery at http www unidata ucar edu software netcdf java formats DataDiscoveryAttConvention html Example Definition data_type data_type OceanSITES time series data This field contains the type of data contained in the file The list of acceptable data types is in reference table 1 Example OceanSITES time series data This attribute is mandatory format_version format_version 1 1 OceanSITES format version Example 1 1 This attribute is mandatory OceanSITES data management User s manual platform_code platform_code ClS 1 Platform unique code within OceanSITES project Example CIS 1 mooring on CIS site Central Irminger Sea This attribute is mandatory date_update date_update 2006 04 11T08 35 00Z File update or creation date UTC See note on time format below This attribute is mandatory
21. ath Use Station for OceanSITES mooring data More http www unidata ucar edu projects THREDD S CDM CDM TDS htm Geographical coverage Try to compose of the following North Tropical South Atlantic Pacific Indian Ocean Southern Ocean Arctic Ocean For specific sea area use the International Hydrographic Bureau sea areas available at http vocab ndg nerc ac uk client vocabServer j sp The southernmost latitude a value between 90 and 90 degrees This attribute is mandatory The northernmost latitude a value between 90 and 90 degrees This attribute is mandatory The westernmost longitude a value between 180 and 180 degrees This attribute is mandatory The easternmost longitude a value between 180 and 180 degrees This attribute is mandatory Minimum depth for measurements Maximum depth for measurements OceanSITES data management User s manual time_coverage_st art time_coverage_start 2006 03 01T00 00 002 time_coverage_e nd time_coverage_end 2006 03 05T23 59 292 institution_refere nces contact codac nocs uk author author John Smith data_assembly_c data_assembly_center EUROSITES pi_name pi_name Alice Juarez distribution_state ment update_interval qc_manual Note on time formats distribution_statement Follows CLIVAR Climate Varibility and Predictability standards cf http www clivar org data da
22. ay OceansITEs Taking the pulse of the global ocean OceanSITES User s Manual NetCDF Conventions and Reference Tables Version 1 2 June 29 2010 Updated March 21 2013 se Table of contents OCEANSITES USER S MANUAL 1 1 OCEANSITES DATA MANAGEMENT PRINCIPLES 6 1 1 About OceanSITES 6 1 2 About this document 6 1 3 OceanSITES data management structure and data access 6 1 4 User Obligations 6 1 5 Disclaimer 7 1 6 Further Information Sources and Contact Information 7 1 7 Useful links tools 7 1 7 1 OceanSITES file format checker 7 1 7 2 OceanSITES file format converters 7 2 OCEANSITES NETCDF DATA FORMAT VERSION 1 2 8 2 1 Data file dimensions 8 2 2 Global attributes 9 2 3 Variables 14 2 3 1 Coordinate variables 14 2 3 2 Coordinate quality control variables 16 2 3 3 Data variables 17 3 OCEANSITES METADATA FORMAT 21 3 1 OceanSITES platform information 21 3 2 OceanSITES Parameter and Sensor Information 21 4 REFERENCE TABLES 22 4 1 Reference tables 1 data type and data code 22 4 1 1 Reference table 1 Data type 22 4 2 Reference table 2 Variable quality control flag scale 22 4 2 1 Reference table 2 1 Overall quality control procedure indicator 22 4 2 2 Reference table 2 2 cell methods 23 4 3 Reference table 3 OceanSITES parameter dictionary 23 4 3 1 Convention for parameter names standard names and units 23 4 3 2 References 24 4 4 Reference table 4 Data Assembly Center Codes 26 4 5 Reference table 5 data mode 26 4 6 Ref
23. er names are not strictly standardized one should use the standard_name attribute to query a particular measurement from different data files Example On a mooring sea temperature measured by a series of Microcat CTD is reported as TEMP with a standard name of SEA WATER_TEMPERATURE Secondary temperature measurement performed by an oxygen sensor is reported as DOXY_TEMP with a standard name of temperature_of_sensor_for_oxygen_in_sea_water For both measurements the unit attribute is degree Celsius 4 3 2 References The OceanSITES standard names are taken from the CF standard names available at e http cf pcemdi IInl gov documents cf standard names e The parameter names are based on SeaDataNet BODC parameter discovery vocabulary available at e http seadatanet maris2 nl v_bodc_vocab welcome aspx Select P021 BODC Parameter Discovery Vocabulary The units are compliant with Udunits as implemented by the CF standard definitions are available at e http www unidata ucar edu software udunits The valid parameter names standard names are available on GDACs ftp servers OceanSITES data management User s manual _ _ The following list an extract of the OceanSITES parameter dictionary for parameter name and standard name eecleclaniciicle Standard name DRYT dry_bulb_temperature i PCO2 surface_partial_pressure_of_carbon_dioxide_in_air was CO2_partial_pressure_in_d
24. erence table 6 OceanSITES sites catalog 27 4 7 Reference table 7 sensor mount characteristics 27 4 8 Reference table 8 sensor orientation characteristics 28 5 GDAC ORGANIZATION 29 5 1 File naming convention 29 5 1 1 Data file naming convention 29 5 1 2 Metadata file naming convention 30 OceanSITES data management User s manual 5 2 Index file for data files 30 6 GLOSSARY DEFINITIONS 33 6 1 Site 33 6 2 Array 33 6 3 Network 33 6 4 Platform 33 6 5 Deployment 34 6 6 Instrument 34 6 7 Sensor 34 OceanSITES data management User s manual _ _ History Version Date Comment 20 03 2003 TC creation of the document 0 3 20 02 2004 TC updates on locations mooring name data state indicator parameters table epic codes history information NG make more flexible add dataset metadata file fos 2sce004 To updses fom Nan Gabi Stove Hanks Jonathan Grego Bran Eaton 1 0 18 02 2006 TC updates following OceanSITES data management meeting 2006 Hawai i 2 1 LEVEL dimension replaces DEPTH to accomadate depth or pressure 2 2 QC_MANUAL field created 2 2 CONVENTION field removed 2 2 PLATFORM_CODE added 2 2 SITE_CODE added 2 2 WMO_PLATFORM_CODE added 2 3 DEPTH renamed DEPH to comply to GF3 2 3 DATA_MODE set at measurement level 3 metadata file description transferred to OceanSITES metadata proposal until approval 5 file naming convention updated 19 02 2006 NG data cod
25. es in chapter 4 1 2 28 04 2006 PF amp NG data mode optional 28 04 2006 TC amp JG 2 2 global attributes 1 1 April May NG MM TC ML general revision based on OceanSITES 2008 meeting June 2008 Epic codes removed Use ISO8601 for string dates Remove general attributes Update global attribute section for CF 1 1 compatibility New dimensions for DEPTH LATITUDE LONGITUDE Add an uncertainty attribute New presentation of the document 1 2 September 1 3 GDAC distribute the best data statement draft 2009 1 4 add a User obligations paragraph 1 5 add a Disclaimer paragraph 2 note on format version 2 2 1 no fill value allowed for TIME LATITUDE LONGITUDE DEPTH 2 2 1 use WGS84 datum for latitude and longitude 2 2 1 DEPTH reference optional attribute 2 2 3 and 4 7 use sensor_mount optional attribute 2 2 3 and 4 8 use sensor_orientation optional attribute 2 2 3 use sensor_name and sensor_orientation attributes 4 3 revisit parameter names 4 4 update DAC codes 4 6 add a sentence on OceanSITES site naming policy 5 1 new data file naming convention 5 2 add GDAC_CREATION_DATE GDAC_UPDATE_DATE PARAMETERS in the index file 1 2 December 5 1 revisit file naming convention draft 7 2009 5 2 add a data_mode in the index file 6 add a Glossary definition chapter OceanSITES data management User s manual
26. forth in the attributes distribution_statement and citation of the NetCDF data files Unless stated otherwise a user must acknowledge use of OceanSITES data in all OceanSITES data management User s manual 7 publications and products where such data are used preferably with the following standard sentence These data were collected and made freely available by the international OceanSITES project and the national programs that contribute to it 1 5 Disclaimer OceanSITES data are published without any warranty express or implied The user assumes all risk arising from his her use of OceanSITES data OceanSITES data are intended to be research quality and include estimates of data quality and accuracy but it is possible that these estimates or the data themselves contain errors It is the sole responsibility of the user to assess if the data are appropriate for his her use and to interpret the data data quality and data accuracy accordingly OceanSITES welcomes users to ask questions and report problems to the contact addresses listed in the data files or on the OceanSITES internet page 1 6 Further Information Sources and Contact Information e OceanSITES website http www oceansites org e For further information about the benefits and distributing data onto the GTS please refer to http www jcommops org dbcp gts or contact the OceanSITES Project Office on projectoffice oceansites org e F
27. have an axis attribute defining that they point in X Y Z and T dimensions The DEPTH variable may be positive in either upward or downward direction which is defined in its positive attribute Default values are not allowed in coordinate variables All attributes in this section except the comment are mandatory however QC_indicator may be omitted for any parameter if there is a separate QC variable for that parameter The Z axis may be represented as pressure if for example pressure is recorded directly by an instrument and the calculation of depth from pressure would cause a loss of information Depth is strongly preferred since it allows data to be used more directly Type name dimension attributes Comment Double TIME TIME Date and time UTC of the measurement TIME long_name time in days since midnight 1950 01 01 TIME standard_name time TIME units days since 1950 01 01T00 00 002 Example TIME valid_min 0 0 Noon Jan 2 1950 is stored as 1 5 TIME valid_max 90000 0 July 25 2001 19 14 00 is stored as TIME QC_ indicator lt X gt 18833 8013889885 TIME QC_procedure lt Y gt TIME uncertainty lt Z gt lt X gt Replaces TIME _QC if constant Cf TIME comment Optional comment note on quality control in data variable TIME axis T section value from reference table 2 lt Y gt Cf note on quality control in data variable section va
28. ification arguments The time stamp should follow the format outlined in the note on time formats below data_mode data_mode R Indicates if the file contains real time provisional or delayed mode data The list of valid data modes is in reference table 5 This attribute is mandatory quality_control_in Quality_control 6 Level of quality control applied to data dicator The values are listed in reference table 2 1 quality_index quality_index A A code value valid for the whole dataset 0 unknown quality A excellent no known problems regular quality checking B probably good occasional problems validation phase C extremely suspect frequent problems references references http www oceansites org Published or web based references that http www noc soton ac uk animate index describe the data or methods used to produce php it Include a reference to OceanSITES and a project specific reference if appropriate OceanSITES data management User s manual comment Conventions comment Conventions CF 1 4 OceanSITES 1 1 Miscellaneous information about the data or methods used to produce it Any free format text is appropriate Name of the conventions followed by the dataset convention starting in lower case c is still valid but will become obsolete Netcdf_version netcdf_version 3 5 Netcdf version used for the data set title summary naming_authorit
29. institution institution National Oceanographic Specifies institution where the original data was Centre produced site_code site_code CIS Name of the site within OceanSITES project Example CIS for Central Irminger Sea The site codes are available on GDAC ftp servers This attribute is mandatory array array TAO An OceanSITES array is a grouping of sites based on a common and identified scientific question or on a common geographic location See the definition in the glossary chapter network network EuroSITES An OceansSITES network is a grouping of sites based on common shore based logistics or infrastructure See the definition in the glossary chapter wmo_platform_co wmo_platform_code 48409 WMO World Meteorological Organization identifier This platform number is unique within the OceanSITES project Example 48409 for CIS 1 mooring source source Mooring observation The method of production of the original data For OceanSITES data use one of the following Shipborne observation Mooring observation history history 2005 04 11T08 35 00Z data Provides an audit trail for modifications to the collected A Meyer original data It should contain a separate line 2005 04 12T10 11 00Z OceanSITES file for each modification with each line beginning with provisional data compiled and sent to with a timestamp and including user name DAC A Meyer modification name and mod
30. lue from reference table 2 1 lt Z gt Choose appropriate value Float LATITUDE LATITUDE Latitude of the measurements LATITUDE long_name Latitude of each location Units degrees north southern latitudes LATITUDE standard_name latitude are negative LATITUDE units degrees_north LATITUDE valid_min 90 0 Example 44 4991 for 44 29 56 76 N LATITUDE valid_max 90 0 LATITUDE QC_indicator lt X gt lt X gt Replaces POSITION_QC if LATITUDE QC_procedure lt Y gt constant Cf note on quality control in LATITUDE uncertainty lt Z gt data variable section value from LATITUDE comment Optional comment reference table 2 LATITUDE axis Y lt Y gt Cf note on quality control in data LATITUDE reference WGS84 variable section value from reference LATITUDE coordinate_reference_frame urn ogc crs EPSG 4326 table 2 1 lt Z gt Choose appropriate value OceanSITES data management User s manual Float LONGITUDE LONGITUDE LONGITUDE long_name Longitude of each location LONGITUDE standard_name longitude LONGITUDE units degrees_east LONGITUDE valid_min 180 0 LONGITUDE valid_max 180 0 LONGITUDE QC_ indicator lt X gt LONGITUDE QC_procedure lt Y gt LONGITUDE uncertainty lt Z gt LONGITUDE comment Optional comment LONGITUDE axis X LONGITUDE reference WGS84 LONGITUDE coordinate_reference_frame urn ogc c
31. n_most_latitude e northern_most_latitude e western_most_longitude e eastern_most_longitude e geospatial_vertical_min e geospatial_vertical_min e update_interval M monthly D daily Y yearly V void e size the size of the file in megabytes e gdac_creation_date date of creation of the file on the GDAC e gdac_update_date date of update of the file on the GDAC e data_mode R P D M real time provisional delayed mode mixed see reference table 5 e parameters list of parameters standard_name available in the file separated with OceanSITES data management User s manual 31 blank The fill value is empty OceanSITES data management User s manual GDAC data files index oceansites_files_index txt OceanSites FTP GLOBAL INDEX FTP FTP IFREMER FR IFREMER OCEANSITES Contact HTTP WWW OCEANSITES ORG Index update date YYYY MM DDTHH MI SSZ 2008 03 30T 18 37 46Z file date_update start_date end_date southern_most_latitude northern_most_latitude western_most_longitude eastern_most_longitude geospatial_vertical_min geospatial_vertical_min update_interval size gdac_creation_date gdac_update_date d ata_mode parameters TAO 0n170w OS_0n170w_SW_LW_2m nc 2008 04 12T08 05 00Z 2007 03 17T18 07 00Z 2008 04 12T08 05 00Z 0 0 170 170 M 16 7 0 550 2008 04 12T08 05 00Z 2008 04 12T08 05 00Z R sea_water_pressure sea_water_temperature sea_water_salinity OceanSITES data management User s manual
32. nter of the data sample or averaging period 2 3 2 Coordinate quality control variables The coordinate variables have the same quality control variables as the data variables If the quality control values are constant the information is given in attributes of the coordinate variables For details see lt PARAM gt _QC in the section on data variables and the note on quality control therein Type name dimension attributes Comment Byte TIME_QC TIME Quality flag for each TIME value Byte POSITION_QC POSITION Quality flag for each LATITUDE and LONGITUDE value Byte DEPTH_QC DEPTH Quality flag for each DEPTH value OceanSITES data management User s manual 2 3 3 Data variables Data variables contain the actual measurements and indicators about their quality uncertainty and mode through which they were obtained There are different options as to how the indicators are specified whether in attributes or separate variables which are outlined in the notes below the table The variable names are standardized in reference table 3 replace lt PARAM with any of the names indicated there Mandatory attributes are marked as such however OceanSITES requests that all other attributes be used and contain meaningful information unless technical reasons make this impossible Type name dimension attributes Float lt PARAM gt TIME DEPTH LATITUDE LONGITUDE or Float lt PARAM gt TIME DEPTH lt PARAM gt stand
33. oi edu NTAS Northwest Tropical Atlantic Station 15 000 51 000 OPERATING USA USA WHOI PON23W PON23W PIRATA TropicalAtlantic NDBC 31007 PMEL paul Freitag noaa gov PMEL michael j mcphaden noaa gov PIRATA at ON 23 W 0 000 23 000 OPERATING BR FR US USA NOAA PMEL P10S10W P10S10W PIRATA TropicalAtlantic NDBC 15001 PMEL paul Freitag noaa gov PMEL michael j mcphaden noaa_gov PIRATA at 10S 10W 10 000 10 000 OPERATING BR FR US USA NOAA PMEL P12N23W P12N23W PIRATA TropicalAtlantic NDBC 13001 PMEL paul Freitag noaa gov PMEL michael_j mcphaden noaa gov PIRATA enhancement 12 000 23 000 PLANNED BR FR US USA NOAA PMEL P15N38W P15N38W PIRATA TropicalAtlantic NDBC 13008 PMEL paul Freitag noaa gov PMEL michael j mcphaden noaa gov PIRATA at 15N 38W 15 000 38 000 OPERATING BR FR US USA NOAA PMEL NDBP CVAL CVAL INCOIS NDBC 23102 INCOIS pattabhi incois gov_ in INCOIS pattabhi incois gov in NIOT CVAL 13 180 80 390 OPERATING INDIA INDIA NIOT NDBP MB04 MB04 INCOIS NDBC 23451 INCOIS pattabhi incois gov in INCOIS pattabhi incois gov in NIOT MB04 20 880 71 490 OPERATING INDIA INDIA NIOT NDBP MB09 MB09 INCOIS NDBC 23456 INCOIS pattabhi incois gov in INCOIS pattabhi incois gov inNIOT MBO9 16 990 71 100 OPERATING INDIA INDIA NIOT NDBP MB20 MB20 INCOIS NDBC 23491 INCOIS pattabhi incois gov_in INCOIS pattabhi incois gov in NIOT MB20 15 010 73 020 OPERATING INDIA INDIA NIOT NDBP MB23 MB23 INCOIS NDBC 23170 INCOIS pattabhi incois
34. optional lt X gt standardized attributes listed in reference tables lt Y gt attributes whose value is set by the PI Principal Investigator standard_name type char see reference table 3 units type char see reference table 3 _ FillValue type float see reference table 3 long_name type char free text QC_indicator type byte see reference table 2 and note on quality control below QC_procedure type byte see reference table 2 1 and note on quality control below valid_min type float Minimum value for valid data valid_max type float Maximum value for valid data comment type char Any free format text with comments as appropriate sensor_depith type float Nominal sensor depth s in meters counting positive as per DEPTH positive sensor_mount type char See reference table 7 for sensor mounting characteristics sensor_orientation type char See reference table 8 for sensor orientation characteristics sensor_name type char if the data all come from a single sensor sensor_serial_number type char if the data all come from a single sensor OceanSITES data management User s manual ancillary_variables type char Other variables associated with lt PARAM e g lt PARAM gt _QC List as space separated string Example TEMP ancillary_variables TEMP_QC TEMP_DM TEMP_UNCERTAINTY NOTE no term may appear in the list of ancillary variables that is not the name of a variable in the file
35. or information about unique numbering of OceanSITES Moorings and Gliders on the GTS see http www wmo int pages prog amp mmop wmo number rules html 1 7 Useful links tools 1 7 1 OceanSITES file format checker The OceansSITES file format checker is a java software freely available at http projets ifremer fr coriolis Observing the ocean Observing system networks OceanSITES Access to data 1 7 2 OceanSITES file format converters Medatlas format to OceanSITES NetCDF converter is available at http projets ifremer fr coriolis Observing the ocean Observing system networks OceanSITES Access to data ODV format to OceanSITES NetCDF converter is also available at http projets ifremer fr coriolis Observing the ocean Observing system networks OceanSITES Access to data OceanSITES data management User s manual re 2 OceanSITES NetCDF data format version 1 2 OceanSITES uses the NetCDF network Common Data Form system a set of software libraries and machine independent data formats Our implementation of NetCDF is based on the community supported Climate and Forecast CF specification which supplies a standard vocabulary and some metadata conventions OceanSITES layers several more conventions above the CF standard These are intended to make it easier to share in situ data to make it simpler for the GDACs to aggregate data from multiple sites and to ensure that the data can be created and understood by the basic
36. ount mounted_on_surface_buoy TEMP sensor_name SBE41 TEMP sensor_serial_number 3263 TEMP ancillary_variables TEMP_QC TEMP uncertainty 0 01f OceanSITES data management User s manual TEMP accuracy 0 01f TEMP precision 0 01f TEMP resolution 0 001f TEMP cell_methods median TEMP DM_indicator P TEMP reference_scale ITS 90 TEMP_QC long_name quality flag TEMP_QC conventions OceanSITES reference table 2 TEMP_QC _ FillValue 128 TEMP_QC flag_values 0 1 2 3 4 5 7 8 9 TEMP_QC flag_meanings no_qc_performed good_data probably_good_data bad_data_that_are_potentially_correctable bad_data value_changed nominal_value interpolated_value missing_value OceanSITES data management User s manual 3 OceanSITES metadata format OceanSITES is developing an OGC SensorML metadata file format Meanwhile this information is available in a Microsoft Word file a text file or a modified CDL NetCDF output file 3 1 OceanSITES platform information Name Value Required Optional platform_category Air Sea Flux Site Transport Site Physical Required Meteorological Biogeochemical Geophysical wmo_message_format WMO standard formats FM13 FM18 FM64 or Optional FM65 PIs may request desired WMO formats and GDAC will determine the final formats to be used wind_direction_conventions WMO standard uses wind from direction indicate Optional
37. rs EPSG 4326 Float DEPTH DEPTH DEPTH long_name Depth of each measurement DEPTH standard_name depth DEPTH units meters DEPTH positive down DEPTH FillValue 99999 0 DEPTH valid_min 0 0 DEPTH valid_max 12000 0 DEPTH QC_indicator lt X gt DEPTH QC_procedure lt Y gt DEPTH uncertainty lt Z gt DEPTH comment Optional comment DEPTH axis 2 DEPTH reference lt R gt DEPTH coordinate_reference_frame urn ogc crs EPSG 5113 Note on latitude and longitude WGS84 datum Longitude of the measurements Unit degrees east western latitudes are negative Example 16 7222 for 16 43 19 92 E lt X gt Replaces POSITION_QC if constant Cf note on quality control in data variable section value from reference table 2 lt Y gt Cf note on quality control in data variable section value from reference table 2 1 lt Z gt Choose appropriate value Depth of each measurement Example 513 for a measurement 513 meters below sea surface Z axes may be positive up atmospheric or positive down oceanic lt X gt Replaces DEPTH_QC if constant Cf note on quality control in data variable section value from reference table 2 lt Y gt Cf note on quality control in data variable section value from reference table 2 1 lt Z gt Choose appropriate value lt R gt The depth reference default value is sea_level O
38. ry wet_gas sv OceanSITES data management User s manual sea_surface_wave_zero_upcrossing_period northward_sea_water_velocity 4 4 Reference table 4 Data Assembly Center Codes Data Assembly Centers and institutions BERGEN UNIVERSITY OF BERGEN GEOPHYSICAL INSTITUTE CCHDO CLIVAR and Carbon Hydographic Office CDIAC CARBON DIOXIDE INFORMATION ANALYSIS CENTER EUROSITES EuroSites EU project IMOS AUSTRALIAN INTEGRATED MARINE OBSERVING SYSTEM INCOIS Indian National Centre for Ocean Information Services JAMSTEC Jamstec Japan Monterey Bay Aquarium Research Institute MEDS Canada ROYAL NETHERLANDS INSTITUTE FOR SEA RESEARCH National Oceanography Centre Southampton PMEL USA SIO Scripps USA WHOI Woods Hole Oceanographic Institution USA 4 5 Reference table 5 data mode The values for the variables lt PARAM gt DM the global attribute data mode and variable attributes lt PARAM gt DM_ indicator are defined as follows Value Meaning Real time data Data coming from the typically remote platform through a communication channel without physical access to the instruments disassembly or recovery of the platform Example for a mooring with a radio communication this would be data obtained through the radio Provisional data Data obtained after the instruments or the platform have been recovered or serviced Example for instruments on a mooring this would be data downloaded directly
39. ta management User s manual Ta 5 GDAC organization There are two GDACs global data assembly centers for redundancy which are the users access points for OceanSITES data One GDAC is located in France Coriolis http www coriolis eu org the other one in the USA NDBC National Data Buoy Center http www ndbc noaa gov The GDACs handle OceanSITES data metadata and index files on ftp servers The servers at both GDACs are synchronized at least daily to provide the same OceanSITES data The user can access the data at either GDAC s ftp site e ftp data ndbc noaa gov data oceansites e ftp ftp ifremer fr ifremer oceansites From these root directories of the GDACs downward the organization of the directories and files is e DATA site FileName nc site OceanSITES site code The sites codes will be listed in the OceanSITES catalogue document at either GDAC s root directory 5 1 File naming convention The OceanSITES file names use the following naming convention for data and metadata files 5 1 1 Data file naming convention OS_XXX_YYY_T_PARTX nc e OS OceanSITES prefix e XXX Platform code from the OceanSITES catalogue e YYY Deployment code unique code for deployment date or number e T Data Mode o R real time data o P provisional data o D delayed mode o M mixed delayed mode and real time e lt PARTX gt An optional user defined field for identification of data Example e O
40. ta_policy php Data available free of charge User assumes all risk for use of data User must display citation in any publication or product using data User must contact PI prior to any commercial use of data citation These data were collected and made freely available by the OceanSITES project and the national programs that contribute to it update_interval daily qc_manual http www ocensites org dat a quality_control_manual pdf Start date of the data in UTC See note on time format below Final date of the data in UTC See note on time format below institution_references http www nocs uk References to data provider institution the place to find all information on the dataset web based i e give URLs Contact person s e mail Name of the person responsible for the creation of the dataset Data Assembly Center DAC in charge of this data file The data_assembly_center are listed in reference table 4 Name of the principal investigator in charge of the platform Statement describing data distribution policy OceanSITES has adopted the CLIVAR data policy which explicitly calls for free and unrestricted data exchange Details at http www clivar org data data_policy php The citation to be used in publications using the dataset Update interval for the file one of the following hourly daily yearly void Use void for delayed mode or archi
41. tandards used therein This includes naming conventions or taxonomy as well as metadata content 1 3 OceanSITES data management structure and data access The data flow within OceanSITES is carried out through three organizational units PIs DACs GDACs The Principal Investigator PI typically a scientist at a research institution maintains the observing platform and the sensors that deliver the data He or she is responsible for providing the data and all auxiliary information to a Data Assembly Center DAC The DAC assembles OceanSITES compliant files from this information and delivers these to the two Global Data Assembly Centers GDACs where they are made publicly available The GDAC distributes the best copy of the data files When a higher quality data file e g calibrated data is available it replaces the previous version of the data file The user can access the data at either GDAC cf section GDAC organization Archive of preliminary or real time data is beyond the scope of the OceanSITES GDACs this issue should be addressed by the long term archive policy for OceanSITES under study 1 4 User Obligations A user of OceanSITES data is expected to read and understand this manual and the documentation about the data as contained in the attributes of the NetCDF data files as these contain essential information about data quality and accuracy A user of OceanSITES data must comply with the requirements set
42. ted for these data e 2 3 1 remove Data with different coordinate variables must be recorded in separate files 2 3 1 empty values are not allowed for coordinate variables 1 2 Feb 12013 Clarify requirements for dimensions and coordinates explain use of and requirements for use of coordinates attribute in some circumstances Clarify the statement that QC flag meanings and values are required OceanSITES data management User s manual _ _ __ _ 1 OceanSITES data management principles 1 1 About OceanSITES The OceanSITES program is the global network of open ocean sustained time series sites called ocean reference stations being implemented by an international partnership of researchers OceanSITES provides fixed point time series of various physical biogeochemical and atmospheric variables at different locations around the globe from the atmosphere and sea surface to the seafloor The program s objective is to build and maintain a multidisciplinary global network for a broad range of research and operational applications including climate carbon and ecosystem variability and forecasting and ocean state validation All OceanSITES data are publicly available More information about the project is available at http www oceansites org 1 2 About this document The main purpose of this document is to specify the format of the files that are used to distribute OceanSITES data and to document the s
43. ther possible values are mean_sea_level mean_lower_low_water wgs84_geoid For instruments that do not have fixed depths such as Profiling floats CTD gliders DEPTH is not required PRES is the vertical axis The latitude and longitude datum is WGS84 This is the default output of GPS systems OceanSITES uses the EPSG coordinate reference system to describe geographical positions the coordinate reference frame corresponding to WGS84 is urn oge crs EPSG 5113 More on EPSG http www epsg org Note on DEPTH reference The default depth reference is sea_level free sea surface In EPSG coordinate reference system this default reference is urn ogce crs EPSG 5113 Note on handling observations in multiple locations An OceanSITES files may contain observations performed in different locations In that case the TIME LATITUDE and LONGITUDE dimensions have the same size OceanSITES data management User s manual 16 For example two CTD casts performed in different locations e TIME LATITUDE and LONGITUDE dimensions are set to 2 e TIME 1 is the time of the first CTD cast TIME 2 is the time of the second CTD cast e LATITUDE 1 is the latitude of the first CTD cast LATITUDE 2 is the latitude of the second CTD cast e LONGITUDE 1 is the longitude of the first CTD cast LONGITUDE 2 is the longitude of the second CTD cast Note on TIME By default the time word represents the ce
44. ve data that do not need continuous updating This field contains the name of the manual that describes the quality control procedure As of now there is no separate QC manual so the user s manual is the appropriate reference Whenever time information is given in the global attributes it ought to be a string of the format YYYY MM DDThh mm ssZ i e year month day T hour minute second Z If higher resolution than seconds is needed any number of decimal digits s for the seconds is acceptable OceanSITES data management User s manual _ YY Y Y MM DDThh mm ss sZ In any case the time must be in UTC A capital T separates the date and the hour information The string must end with a capital Z an old indication of UTC These formats are two of many described by ISO8601 Examples e 2005 10 24T08 00 00Z e 2008 01 01T22 50 02 031Z OceanSITES data management User s manual O 2 3 Variables NetCDF variables include data measured by instruments parameters derived from the primary measurements and coordinate variables which may be nominal values such as values for depth for instruments that do not directly record depth The variable names are written in CAPITALIZED letters Each variable has a specific set of attributes some of which are mandatory 2 3 1 Coordinate variables The coordinate variables orient the data in time and space For this purpose they
45. y id cdm_data_type area geospatial_lat_mi n geospatial_lat_m ax geospatial_lon_m in geospatial_lon_m ax geospatial_vertic al_min geospatial_vertic al_max title CIS Mooring Data summary Oceanographic mooring data from CIS observatory in the Central Irminger Sea North Atlantic in 2005 Measured properties temperature and salinity at ten depth levels Naming_authority OceanSITES id OS_CIS 1_200502_TS cdm_data_type Station area North Atlantic Ocean geospatial_lat_min 59 8 geospatial_lat_max 59 8 geospatial_lon_min 41 2 geospatial_lon_max 41 2 geospatial_vertical_min 10 0 geospatial_vertical_max 2000 Free format text describing the dataset The display of these two attributes together should allow data discovery for a human reader title title of the dataset Use the file name if in doubt summary a longer description of the dataset A paragraph of up to 100 words is appropriate The id and naming_authority attributes are intended to provide a globally unique identification for each dataset For OceanSITES data use naming_authority OceanSITES and id file name without nc suffix which is designed to be unique The cdm_data_type attribute gives the Unidata CDM common data model data type used by THREDDS E g Point Trajectory Station Radial Grid Sw
46. ype char Required Must be the same as lt PARAM gt units Y gt lt PARAM gt units lt Y gt Note on coordinates attribute OceanSITES data management User s manual All of a variable s spatiotemporal coordinates latitude longitude vertical and time that are not dimensions of the variable e g Float lt PARAM gt TIME DEPTH as opposed to Float lt PARAM gt TIME DEPTH LATITUDE LONGITUDE are required to be associated with the data variable via the coordinates attribute of the variable The value of the coordinates attribute is a blank separated list of the names of auxiliary coordinate variables Note on quality control QC The quality of the data in a variable lt PARAM is described by the attribute lt PARAM gt QC_procedure and one of the following the attribute lt PARAM gt QC_indicator or the variable lt PARAM_QC gt lt PARAM gt QC_procedure is mandatory and contains values from reference table 2 1 which describe what kind of quality control procedure has been applied It is mandatory to define one of lt PARAM gt QC_indicator or lt PARAM_QC gt both of which would contain values describing the data quality as per reference table 2 If the quality is the same for all lt PARAMS use lt PARAM gt QC_indicator Else use lt PARAM_QC gt Note on uncertainty If the overall measurement uncertainty for a variable lt PARAMS gt is reasonably well known it must be
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