Accessing BCO-DMO data
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| Dataset Title: | [GP16 Elemental selenium and particulate Acid-Volatile Sulfide] - Particulate Acid-Volatile Sulfide (pAVS) and elemental selenium (pSe) concentrations from a McLane pump collected during the R/V Thomas G. Thompson cruise TN303 from Peru to Tahiti in 2013 (U.S. GEOTRACES EPZT project) (U.S. GEOTRACES East Pacific Zonal Transect) 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_646143) |
| Information: | Summary
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Attributes {
s {
cruise_id {
String bcodmo_name "cruise_id";
String description "Cruise identifier. TN = R/V Thomas G. Thompson.";
String long_name "Cruise Id";
String units "unitless";
}
EXPOCODE {
String bcodmo_name "EXPOCODE";
String description "Used as a unique identifier for a cruise. Usual generation formula is ICES 4 character platform code then the cruise departure date in YYYYMDD format";
String long_name "EXPOCODE";
String units "unitless";
}
SECT_ID {
String bcodmo_name "Cruise Name";
String description "GEOTRACES cruise name.";
String long_name "SECT ID";
String units "unitless";
}
GEOTRC_INSTR {
String bcodmo_name "instrument";
String description "Instrument";
String long_name "GEOTRC INSTR";
String units "unitless";
}
STNNBR {
Byte _FillValue 127;
String _Unsigned "false";
Byte actual_range 1, 23;
String bcodmo_name "station";
String description "Station number.";
String long_name "STNNBR";
String units "unitless";
}
CASTNO {
Byte _FillValue 127;
String _Unsigned "false";
Byte actual_range 3, 12;
String bcodmo_name "cast";
String description "Cast number.";
String long_name "CASTNO";
String units "unitless";
}
GEOTRC_EVENTNO {
Int16 _FillValue 32767;
Int16 actual_range 4013, 4300;
String bcodmo_name "event";
String description "GEOTRACES event number.";
String long_name "GEOTRC EVENTNO";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/EVTAGFL/";
String units "unitless";
}
DATE_START_EVENT {
Int32 _FillValue 2147483647;
Int32 actual_range 20131029, 20131129;
String bcodmo_name "date_start";
String description "Date at the start of the event, according to the event log. in the format YYYYmmdd";
String long_name "DATE START EVENT";
String units "unitless";
}
TIME_START_EVENT {
Int16 _FillValue 32767;
Int16 actual_range 45, 2318;
String bcodmo_name "time_start";
String description "Time at the start of the event according to the event log";
String long_name "TIME START EVENT";
String units "unitless";
}
time {
String _CoordinateAxisType "Time";
Float64 actual_range 1.3830186e+9, 1.38576306e+9;
String axis "T";
String bcodmo_name "ISO_DateTime_UTC";
String description "Date and time (UTC) at start of the event, formatted to ISO 8601 standard, according to the event log. Format is YYYY-mm-ddTHH:MM:SS.xxZ.";
String ioos_category "Time";
String long_name "ISO DATETIME UTC START EVENT";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/DTUT8601/";
String source_name "ISO_DATETIME_UTC_START_EVENT";
String standard_name "time";
String time_origin "01-JAN-1970 00:00:00";
String time_precision "1970-01-01T00:00:00.00Z";
String units "seconds since 1970-01-01T00:00:00Z";
}
latitude {
String _CoordinateAxisType "Lat";
Float64 _FillValue NaN;
Float64 actual_range -16.00058, -11.99933;
String axis "Y";
String bcodmo_name "latitude";
String description "Latitude at the start of the event, according to the event log.";
String ioos_category "Location";
String long_name "EVENT LAT";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P09/current/LATX/";
String standard_name "latitude";
String units "degrees_north";
}
longitude {
String _CoordinateAxisType "Lon";
Float64 _FillValue NaN;
Float64 actual_range -120.00217, -77.376;
String axis "X";
String bcodmo_name "longitude";
String description "Longitude according to the event log; West is negative";
String ioos_category "Location";
String long_name "EVENT LON";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P09/current/LONX/";
String standard_name "longitude";
String units "degrees_east";
}
DEPTH_MIN {
Int16 _FillValue 32767;
Int16 actual_range 15, 2800;
String bcodmo_name "depth_min";
Float64 colorBarMaximum 8000.0;
Float64 colorBarMinimum -8000.0;
String colorBarPalette "TopographyDepth";
String description "event depth minimum";
String long_name "Depth";
String standard_name "depth";
String units "meters";
}
DEPTH_MAX {
Int16 _FillValue 32767;
Int16 actual_range 108, 5523;
String bcodmo_name "depth_max";
Float64 colorBarMaximum 8000.0;
Float64 colorBarMinimum -8000.0;
String colorBarPalette "TopographyDepth";
String description "event depth maxium";
String long_name "Depth";
String standard_name "depth";
String units "meters";
}
GEOTRC_SAMPNO {
Int16 _FillValue 32767;
Int16 actual_range 2083, 9068;
String bcodmo_name "sample";
String description "GEOTRACES sample number.";
String long_name "GEOTRC SAMPNO";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
String units "unitless";
}
SAMPNO {
Int16 _FillValue 32767;
Int16 actual_range 301, 1208;
String bcodmo_name "sample";
String description "Bottle sample number, according to PI.";
String long_name "SAMPNO";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
String units "unitless";
}
depth {
String _CoordinateAxisType "Height";
String _CoordinateZisPositive "down";
Float64 _FillValue NaN;
Float64 actual_range 15.0, 5500.0;
String axis "Z";
String bcodmo_name "depth_n";
Float64 colorBarMaximum 8000.0;
Float64 colorBarMinimum -8000.0;
String colorBarPalette "TopographyDepth";
String description "nominal depth";
String ioos_category "Location";
String long_name "Depth";
String positive "down";
String standard_name "depth";
String units "m";
}
AVS_TP_CONC_PUMP {
Float32 _FillValue NaN;
Float32 actual_range 0.0, 264.0;
String bcodmo_name "trace_element_conc";
String description "particulate acid volatile sulfide";
String long_name "AVS TP CONC PUMP";
String units "picomoles per liter";
}
Se_0_TP_CONC_PUMP {
Float32 _FillValue NaN;
Float32 actual_range 0.0, 0.21;
String bcodmo_name "trace_element_conc";
String description "particulate elemental selenium";
String long_name "Se 0 TP CONC PUMP";
String units "nanomoles per liter";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson,.odvTxt";
String acquisition_description
"Samples analyzed for acid-volatile sulfides (AVS) were collected on McLane
pumps suspended from a trace metal wire (Hytrel-jacketed Vectran). Pumps
filtered for four hours, flowing first over a 51-\\u00b5m polyester pre-filter,
then over paired 0.8-\\u00b5m pore-size, 142-mm Supor polyethersulfone filters.
A small portion of the top Supor filter, representing ~2% of the filter area
(0.8-51 \\u00b5m size-fraction material), was sub-sectioned into polyethylene
vials and frozen at -85\\u02daC until shipboard AVS analysis, described below.
Filter blanks were held within identical filter housings and submerged on one
of the deeper pumps on each cast, but were not actively filtered through.
Blanks were handled identically to samples during processing, which was
conducted in a HEPA-filtered environment using trace metal procedures.
Particulate elemental samples were collected using McLane in situ pumps (P.
Lam, UCSC) with splits (section) from a 0.8 \\u00b5m Supor filter processed
immediately in a N2-purged glove bag after collection and pump recovery;
filter splits were placed and sealed in Tedlar bags and stored at -80\\u00b0C
until analysis. Particulate elemental selenium concentrations were determined
using a sulfite leach following Velinsky and Cutter (1990) and analyzed like
selenite+selenate following Cutter (1978).\\u00a0 Precision was ca. 10% RSD
(n=3).\\u00a0";
String awards_0_award_nid "646152";
String awards_0_award_number "OCE-1235328";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward?AWD_ID=1235328&HistoricalAwards=false";
String awards_0_funder_name "NSF Division of Ocean Sciences";
String awards_0_funding_acronym "NSF OCE";
String awards_0_funding_source_nid "355";
String awards_0_program_manager "Henrietta N Edmonds";
String awards_0_program_manager_nid "51517";
String cdm_data_type "Other";
String comment
"Acid-Volatile Sulfide and elemental selenium profiles
data from McLane pumps
G. Cutter, PI
version 03 June 2016 - one set of depths fixed";
String Conventions "COARDS, CF-1.6, ACDD-1.3";
String creator_email "info@bco-dmo.org";
String creator_name "BCO-DMO";
String creator_type "institution";
String creator_url "https://www.bco-dmo.org/";
String data_source "extract_data_as_tsv version 2.3 19 Dec 2019";
String date_created "2016-05-19T20:17:52Z";
String date_modified "2020-04-16T20:47:31Z";
String defaultDataQuery "&time<now";
String doi "10.26008/1912/bco-dmo.646143.1";
Float64 Easternmost_Easting -77.376;
Float64 geospatial_lat_max -11.99933;
Float64 geospatial_lat_min -16.00058;
String geospatial_lat_units "degrees_north";
Float64 geospatial_lon_max -77.376;
Float64 geospatial_lon_min -120.00217;
String geospatial_lon_units "degrees_east";
Float64 geospatial_vertical_max 5500.0;
Float64 geospatial_vertical_min 15.0;
String geospatial_vertical_positive "down";
String geospatial_vertical_units "m";
String history
"2024-11-23T17:14:55Z (local files)
2024-11-23T17:14:55Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_646143.html";
String infoUrl "https://www.bco-dmo.org/dataset/646143";
String institution "BCO-DMO";
String instruments_0_acronym "McLane Pump";
String instruments_0_dataset_instrument_description "In the data, McLane pumps are called \"McL-Prof.\"";
String instruments_0_dataset_instrument_nid "646245";
String instruments_0_description "McLane pumps sample large volumes of seawater at depth. They are attached to a wire and lowered to different depths in the ocean. As the water is pumped through the filter, particles suspended in the ocean are collected on the filters. The pumps are then retrieved and the contents of the filters are analyzed in a lab.";
String instruments_0_instrument_name "McLane Pump";
String instruments_0_instrument_nid "627";
String instruments_0_supplied_name "McLane pumps";
String instruments_1_acronym "Gas Chromatograph";
String instruments_1_dataset_instrument_description "Gas chromatograph/flame photometric ionizer";
String instruments_1_dataset_instrument_nid "646246";
String instruments_1_description "Instrument separating gases, volatile substances, or substances dissolved in a volatile solvent by transporting an inert gas through a column packed with a sorbent to a detector for assay. (from SeaDataNet, BODC)";
String instruments_1_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB02/";
String instruments_1_instrument_name "Gas Chromatograph";
String instruments_1_instrument_nid "661";
String instruments_1_supplied_name "Gas chromatograph";
String keywords "avs, AVS_TP_CONC_PUMP, bco, bco-dmo, biological, castno, chemical, conc, cruise, cruise_id, data, dataset, date, DATE_START_EVENT, datetime, depth, DEPTH_MAX, DEPTH_MIN, depth_n, dmo, erddap, event, EVENT_LAT, EVENT_LON, eventno, expocode, geotrc, GEOTRC_EVENTNO, GEOTRC_INSTR, GEOTRC_SAMPNO, instr, iso, management, oceanography, office, preliminary, pump, sampno, Se_0_TP_CONC_PUMP, sect, SECT_ID, start, stnnbr, time, TIME_START_EVENT";
String license "https://www.bco-dmo.org/dataset/646143/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/646143";
Float64 Northernmost_Northing -11.99933;
String param_mapping "{'646143': {'ISO_DATETIME_UTC_START_EVENT': 'flag - time', 'EVENT_LAT': 'flag - latitude', 'EVENT_LON': 'flag - longitude', 'depth_n': 'flag - depth'}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/646143/parameters";
String people_0_affiliation "Old Dominion University";
String people_0_affiliation_acronym "ODU";
String people_0_person_name "Gregory Cutter";
String people_0_person_nid "50679";
String people_0_role "Principal Investigator";
String people_0_role_type "originator";
String people_1_affiliation "Old Dominion University";
String people_1_affiliation_acronym "ODU";
String people_1_person_name "Gregory Cutter";
String people_1_person_nid "50679";
String people_1_role "Contact";
String people_1_role_type "related";
String people_2_affiliation "Woods Hole Oceanographic Institution";
String people_2_affiliation_acronym "WHOI BCO-DMO";
String people_2_person_name "Ms Dicky Allison";
String people_2_person_nid "50382";
String people_2_role "BCO-DMO Data Manager";
String people_2_role_type "related";
String people_3_affiliation "Woods Hole Oceanographic Institution";
String people_3_affiliation_acronym "WHOI BCO-DMO";
String people_3_person_name "Amber York";
String people_3_person_nid "643627";
String people_3_role "BCO-DMO Data Manager";
String people_3_role_type "related";
String project "U.S. GEOTRACES EPZT,EPZT_Redox_Elements";
String projects_0_acronym "U.S. GEOTRACES EPZT";
String projects_0_description
"From the NSF Award Abstract
The mission of the International GEOTRACES Program (www.geotraces.org), of which the U.S. chemical oceanography research community is a founding member, is \"to identify processes and quantify fluxes that control the distributions of key trace elements and isotopes in the ocean, and to establish the sensitivity of these distributions to changing environmental conditions\" (GEOTRACES Science Plan, 2006). In the United States, ocean chemists are currently in the process of organizing a zonal transect in the eastern tropical South Pacific (ETSP) from Peru to Tahiti as the second cruise of the U.S.GEOTRACES Program. This Pacific section includes a large area characterized by high rates of primary production and particle export in the eastern boundary associated with the Peru Upwelling, a large oxygen minimum zone that is a major global sink for fixed nitrogen, and a large hydrothermal plume arising from the East Pacific Rise. This particular section was selected as a result of open planning workshops in 2007 and 2008, with a final recommendation made by the U.S.GEOTRACES Steering Committee in 2009. It is the first part of a two-stage plan that will include a meridional section of the Pacific from Tahiti to Alaska as a subsequent expedition.
This award provides funding for management of the U.S.GEOTRACES Pacific campaign to a team of scientists from the University of Southern California, Old Dominion University, and the Woods Hole Oceanographic Institution. The three co-leaders will provide mission leadership, essential support services, and management structure for acquiring the trace elements and isotopes samples listed as core parameters in the International GEOTRACES Science Plan, plus hydrographic and nutrient data needed by participating investigators. With this support from NSF, the management team will (1) plan and coordinate the 52-day Pacific research cruise described above; (2) obtain representative samples for a wide variety of trace metals of interest using conventional CTD/rosette and GEOTRACES Sampling Systems; (3) acquire conventional JGOFS/WOCE-quality hydrographic data (CTD, transmissometer, fluorometer, oxygen sensor, etc) along with discrete samples for salinity, dissolved oxygen (to 1 uM detection limits), plant pigments, redox tracers such as ammonium and nitrite, and dissolved nutrients at micro- and nanomolar levels; (4) ensure that proper QA/QC protocols are followed and reported, as well as fulfilling all GEOTRACES Intercalibration protocols; (5) prepare and deliver all hydrographic-type data to the GEOTRACES Data Center (and US data centers); and (6) coordinate cruise communications between all participating investigators, including preparation of a hydrographic report/publication.
Broader Impacts: The project is part of an international collaborative program that has forged strong partnerships in the intercalibration and implementation phases that are unprecedented in chemical oceanography. The science product of these collective missions will enhance our ability to understand how to interpret the chemical composition of the ocean, and interpret how climate change will affect ocean chemistry. Partnerships include contributions to the infrastructure of developing nations with overlapping interests in the study area, in this case Peru. There is a strong educational component to the program, with many Ph.D. students carrying out thesis research within the program.
Figure 1. The 2013 GEOTRACES EPZT Cruise Track. [click on the image to view a larger version]";
String projects_0_end_date "2015-06";
String projects_0_geolocation "Eastern Tropical Pacific - Transect from Peru to Tahiti";
String projects_0_name "U.S. GEOTRACES East Pacific Zonal Transect";
String projects_0_project_nid "499723";
String projects_0_project_website "https://www.geotraces.org/";
String projects_0_start_date "2012-06";
String projects_1_acronym "EPZT_Redox_Elements";
String projects_1_description
"Extracted from the NSF award abstract:
The 2013 GEOTRACES Eastern Pacific Zonal Transect from Peru to Tahiti will cross an entensive oxygen deficient zone typically described as \"suboxic\"; however, measurements of sulfate reduction in this region suggest it may have some anoxic characteristics due to the presence of free sulfide. Redox conditions influence the solubility/stability of many trace elements which in turn affects their vertical and horizontal transport. A scientist from Old Dominion University plans to analyze water samples collected during the cruise for dissolved iodate/iodide, arsenic [As(III)/As(V)], selenium [Se(IV, VI), particulate Se(0), and nano- to picomolar hydrogen sulfide speciation (total, free/uncomplexed). These measurements, along with nitrate/nitrite, nitrous oxide, and iron species determined by other participants during the cruise, will be used to constrain the range of redox conditions within the oxygen deficient zone, assess the importance of in-situ reduction versus horizontal advection of the redox species, and the changing redox conditions within the hydrothermal plume of the East Pacific Rise. Availability of this data will also enable other researchers to determine the behavior of other redox sensitive trace elements in the ocean.";
String projects_1_end_date "2016-11";
String projects_1_geolocation "Eastern Pacific";
String projects_1_name "US GEOTRACES Pacific section: Characterizing the redox environment of the eastern tropical Pacific Ocean";
String projects_1_project_nid "647929";
String projects_1_start_date "2012-12";
String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
String publisher_type "institution";
String sourceUrl "(local files)";
Float64 Southernmost_Northing -16.00058;
String standard_name_vocabulary "CF Standard Name Table v55";
String subsetVariables "cruise_id,EXPOCODE,SECT_ID,GEOTRC_INSTR";
String summary "Particulate Acid-Volatile Sulfide (pAVS) and elemental selenium (pSe) concentrations from a McLane pump collected during the R/V Thomas G. Thompson cruise TN303 from Peru to Tahiti in 2013.";
String time_coverage_end "2013-11-29T22:11:00.00Z";
String time_coverage_start "2013-10-29T03:50:00.00Z";
String title "[GP16 Elemental selenium and particulate Acid-Volatile Sulfide] - Particulate Acid-Volatile Sulfide (pAVS) and elemental selenium (pSe) concentrations from a McLane pump collected during the R/V Thomas G. Thompson cruise TN303 from Peru to Tahiti in 2013 (U.S. GEOTRACES EPZT project) (U.S. GEOTRACES East Pacific Zonal Transect)";
String version "1";
Float64 Westernmost_Easting -120.00217;
String xml_source "osprey2erddap.update_xml() v1.3";
}
}
Data Access Protocol (DAP) and its
selection constraints.
The URL specifies what you want: the dataset, a description of the graph or the subset of the data, and the file type for the response.
Tabledap request URLs must be in the form
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/datasetID.fileType{?query}
For example,
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/pmelTaoDySst.htmlTable?longitude,latitude,time,station,wmo_platform_code,T_25&time>=2015-05-23T12:00:00Z&time<=2015-05-31T12:00:00Z
Thus, the query is often a comma-separated list of desired variable names,
followed by a collection of
constraints (e.g., variable<value),
each preceded by '&' (which is interpreted as "AND").
For details, see the tabledap Documentation.