Data Access Form

Dataset Title:	Hakai Bulk and Size-Fractionated Chlorophyll and Phaeopigment Concentrations Collected by Niskin Bottle, Provisional
Institution:	Hakai Institute (Dataset ID: HakaiChlorophyllSampleProvisional)
Information:	Summary \| License \| FGDC \| Metadata \| Background \| Subset \| Make a graph

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Variable

Optional
Constraint #1

Optional
Constraint #2

Minimum

or a List of Values

Maximum

work_area

survey

site_id

latitude (degrees_north)

longitude (degrees_east)

preciseLat (Precise Latitude, degrees_north)

preciseLon (Precise Longitude, degrees_east)

depth (m)

line_out_depth (m)

pressure_transducer_depth (m)

time (Collected, UTC)

phaeo_20um (ug/L)

phaeo_20um_flag

phaeo_3_20um (ug/L)

phaeo_3_20um_flag

phaeo_2_20um (ug/L)

phaeo_2_20um_flag

phaeo_gff_2um (ug/L)

phaeo_gff_2um_flag

phaeo_gff_3um (ug/L)

phaeo_gff_3um_flag

phaeo_bulk_gff (ug/L)

phaeo_bulk_gff_flag

chla_20um (ug/L)

chla_20um_flag

chla_2_20um (ug/L)

chla_2_20um_flag

chla_3_20um (ug/L)

chla_3_20um_flag

chla_gff_2um (ug/L)

chla_gff_2um_flag

chla_gff_3um (ug/L)

chla_gff_3um_flag

chla_bulk_gff (ug/L)

chla_bulk_gff_flag

Server-side Functions

distinct()

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The Dataset Attribute Structure (.das) for this Dataset

Attributes {
 s {
  work_area {
    String long_name "Work Area";
  }
  survey {
    String long_name "Survey";
  }
  site_id {
    String cf_role "timeseries_id";
    String long_name "Site Id";
  }
  latitude {
    String _CoordinateAxisType "Lat";
    String axis "Y";
    Float64 colorBarMaximum 90.0;
    Float64 colorBarMinimum -90.0;
    String ioos_category "Location";
    String long_name "Latitude";
    String standard_name "latitude";
    String units "degrees_north";
  }
  longitude {
    String _CoordinateAxisType "Lon";
    String axis "X";
    Float64 colorBarMaximum 180.0;
    Float64 colorBarMinimum -180.0;
    String ioos_category "Location";
    String long_name "Longitude";
    String source_name "long";
    String standard_name "longitude";
    String units "degrees_east";
  }
  preciseLat {
    String long_name "Precise Latitude";
    String units "degrees_north";
  }
  preciseLon {
    String long_name "Precise Longitude";
    String units "degrees_east";
  }
  depth {
    String _CoordinateAxisType "Height";
    String _CoordinateZisPositive "down";
    String axis "Z";
    String ioos_category "Location";
    String long_name "Depth";
    String positive "down";
    String standard_name "depth";
    String units "m";
  }
  line_out_depth {
    Float64 actual_range 0.0, 650.0;
    String long_name "Line Out Depth";
    String units "m";
  }
  pressure_transducer_depth {
    String long_name "Pressure Transducer Depth";
    String units "m";
  }
  time {
    String _CoordinateAxisType "Time";
    String axis "T";
    String cf_role "profile_id";
    String ioos_category "Time";
    String long_name "Collected";
    String source_name "collected";
    String standard_name "time";
    String time_origin "01-JAN-1970 00:00:00";
    String units "seconds since 1970-01-01T00:00:00Z";
  }
  phaeo_20um {
    String ancillary_data "phaeo_20um_flag";
    String long_name "Bigger than 20um Concentration Of Phaeopigments in Sea Water";
    String sdn_parameter_name "Concentration of phaeopigments {pheopigments} per unit volume of the water body [particulate >20um phase] by filtration, acetone extraction and fluorometry";
    String sdn_parameter_urn "SDN:P01::";
    String sdn_uom_name "Micrograms per litre";
    String sdn_uom_urn "SDN:P06::UGPL";
    String units "ug/L";
  }
  phaeo_20um_flag {
    String flag_meaning "Accepted_value Suspicious_value Discard_value Below_detection_limit Missing";
    String flag_values 
"AV
SVC
SVD
BDL
MV";
    String long_name "QualityFlag: Bigger than 20um Concentration Of Phaeopigments in Sea Water";
    String standard_name "aggregate_quality_flag";
  }
  phaeo_3_20um {
    String ancillary_data "phaeo_3_20um_flag";
    String long_name "3um to 20um Concentration Of Phaeopigments in Sea Water";
    String sdn_parameter_name "Concentration of phaeopigments {pheopigments} per unit volume of the water body [particulate 3-20um phase] by filtration, acetone extraction and fluorometry";
    String sdn_parameter_urn "SDN:P01::";
    String sdn_uom_name "Micrograms per litre";
    String sdn_uom_urn "SDN:P06::UGPL";
    String units "ug/L";
  }
  phaeo_3_20um_flag {
    String flag_meaning "Accepted_value Suspicious_value Discard_value Below_detection_limit Missing";
    String flag_values 
"AV
SVC
SVD
BDL
MV";
    String long_name "QualityFlag: 3um to 20um Concentration Of Phaeopigments in Sea Water";
    String standard_name "aggregate_quality_flag";
  }
  phaeo_2_20um {
    String ancillary_data "phaeo_2_20um_flag";
    String long_name "2um to 20um Concentration Of Phaeopigments in Sea Water";
    String sdn_parameter_name "Concentration of phaeopigments {pheopigments} per unit volume of the water body [particulate 2-20um phase] by filtration, acetone extraction and fluorometry";
    String sdn_parameter_urn "SDN:P01::SPHAFLPG";
    String sdn_uom_name "Micrograms per litre";
    String sdn_uom_urn "SDN:P06::UGPL";
    String units "ug/L";
  }
  phaeo_2_20um_flag {
    String flag_meaning "Accepted_value Suspicious_value Discard_value Below_detection_limit Missing";
    String flag_values 
"AV
SVC
SVD
BDL
MV";
    String long_name "QualityFlag: 2um to 20um Concentration Of Phaeopigments in Sea Water";
    String standard_name "aggregate_quality_flag";
  }
  phaeo_gff_2um {
    String ancillary_data "phaeo_gff_2um_flag";
    String long_name "GF/F size to 2um size Concentration Of Phaeopigments in Sea Water";
    String sdn_parameter_name "Concentration of phaeopigments {pheopigments} per unit volume of the water body [particulate GF/F-2um phase] by filtration, acetone extraction and fluorometry";
    String sdn_parameter_urn "SDN:P01::";
    String sdn_uom_name "Micrograms per litre";
    String sdn_uom_urn "SDN:P06::UGPL";
    String units "ug/L";
  }
  phaeo_gff_2um_flag {
    String flag_meaning "Accepted_value Suspicious_value Discard_value Below_detection_limit Missing";
    String flag_values 
"AV
SVC
SVD
BDL
MV";
    String long_name "QualityFlag: GF/F size to 2um size Concentration Of Phaeopigments in Sea Water";
    String standard_name "aggregate_quality_flag";
  }
  phaeo_gff_3um {
    String ancillary_data "phaeo_gff_3um_flag";
    String long_name "GF/F size to 3um size Concentration Of Phaeopigments in Sea Water";
    String sdn_parameter_name "Concentration of phaeopigments {pheopigments} per unit volume of the water body [particulate GF/F-3um phase] by filtration, acetone extraction and fluorometry";
    String sdn_parameter_urn "SDN:P01::";
    String sdn_uom_name "Micrograms per litre";
    String sdn_uom_urn "SDN:P06::UGPL";
    String units "ug/L";
  }
  phaeo_gff_3um_flag {
    String flag_meaning "Accepted_value Suspicious_value Discard_value Below_detection_limit Missing";
    String flag_values 
"AV
SVC
SVD
BDL
MV";
    String long_name "QualityFlag: GF/F size to 3um size Concentration Of Phaeopigments in Sea Water";
    String standard_name "aggregate_quality_flag";
  }
  phaeo_bulk_gff {
    String ancillary_data "phaeo_bulk_gff_flag";
    String long_name "Bulk Concentration Of Phaeopigments in Sea Water";
    String sdn_parameter_name "Concentration standard deviation of phaeopigments {pheopigments} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and fluorometry";
    String sdn_parameter_urn "SDN:P01::PHSDFLP1";
    String sdn_uom_name "Micrograms per litre";
    String sdn_uom_urn "SDN:P06::UGPL";
    String units "ug/L";
  }
  phaeo_bulk_gff_flag {
    String flag_meaning "Accepted_value Suspicious_value Discard_value Below_detection_limit Missing";
    String flag_values 
"AV
SVC
SVD
BDL
MV";
    String long_name "QualityFlag: Bulk Concentration Of Phaeopigments in Sea Water";
    String standard_name "aggregate_quality_flag";
  }
  chla_20um {
    String ancillary_data "chla_20um_flag";
    Float64 colorBarMaximum 30.0;
    Float64 colorBarMinimum 0.0;
    String long_name ">Bigger than 20um Concentration Of Chlorophyll in Sea Water";
    String sdn_parameter_name "Concentration of chlorophyll-a {chl-a CAS 479-61-8} per unit volume of the water body [particulate >20um phase] by filtration, acetone extraction and fluorometry";
    String sdn_parameter_urn "SDN:P01::SCHLFLPQ";
    String sdn_uom_name "Micrograms per litre";
    String sdn_uom_urn "SDN:P06::UGPL";
    String standard_name "mass_concentration_of_microphytoplankton_expressed_as_chlorophyll_in_sea_water";
    String units "ug/L";
  }
  chla_20um_flag {
    String flag_meaning "Accepted_value Suspicious_value Discard_value Below_detection_limit Missing";
    String flag_values 
"AV
SVC
SVD
BDL
MV";
    String long_name "QualityFlag: Bigger than 20um Concentration Of Chlorophyll in Sea Water";
    String standard_name "aggregate_quality_flag";
  }
  chla_2_20um {
    String ancillary_data "chla_2_20um_flag";
    Float64 colorBarMaximum 30.0;
    Float64 colorBarMinimum 0.0;
    String long_name "2um to 20um Concentration Of Chlorophyll in Sea Water";
    String sdn_parameter_name "Concentration standard deviation of chlorophyll-a {chl-a CAS 479-61-8} per unit volume of the water body [particulate 2-20um phase] by filtration, acetone extraction and fluorometry";
    String sdn_parameter_urn "SDN:P01::SCHDSDPG";
    String sdn_uom_name "Micrograms per litre";
    String sdn_uom_urn "SDN:P06::UGPL";
    String standard_name "mass_concentration_of_nanophytoplankton_expressed_as_chlorophyll_in_sea_water";
    String units "ug/L";
  }
  chla_2_20um_flag {
    String flag_meaning "Accepted_value Suspicious_value Discard_value Below_detection_limit Missing";
    String flag_values 
"AV
SVC
SVD
BDL
MV";
    String long_name "QualityFlag: 2um to 20um Concentration Of Chlorophyll in Sea Water";
    String standard_name "aggregate_quality_flag";
  }
  chla_3_20um {
    String ancillary_data "chla_3_20um_flag";
    Float64 colorBarMaximum 30.0;
    Float64 colorBarMinimum 0.0;
    String long_name "3um to 20um Concentration Of Chlorophyll in Sea Water";
    String sdn_parameter_name "Concentration standard deviation of chlorophyll-a {chl-a CAS 479-61-8} per unit volume of the water body [particulate GF/F-3um phase] by filtration, acetone extraction and fluorometry";
    String sdn_parameter_urn "SDN:P01::";
    String sdn_uom_name "Micrograms per litre";
    String sdn_uom_urn "SDN:P06::UGPL";
    String standard_name "mass_concentration_of_nanophytoplankton_expressed_as_chlorophyll_in_sea_water";
    String units "ug/L";
  }
  chla_3_20um_flag {
    String flag_meaning "Accepted_value Suspicious_value Discard_value Below_detection_limit Missing";
    String flag_values 
"AV
SVC
SVD
BDL
MV";
    String long_name "QualityFlag: 3um to 20um Concentration Of Chlorophyll in Sea Water";
    String standard_name "aggregate_quality_flag";
  }
  chla_gff_2um {
    String ancillary_data "chla_gff_2um_flag";
    Float64 colorBarMaximum 30.0;
    Float64 colorBarMinimum 0.0;
    String long_name "GF/F to 2um Concentration Of Chlorophyll in Sea Water";
    String sdn_parameter_name "Concentration standard deviation of chlorophyll-a {chl-a CAS 479-61-8} per unit volume of the water body [particulate GF/F-2um phase] by filtration, acetone extraction and fluorometry";
    String sdn_parameter_urn "SDN:P01::";
    String sdn_uom_name "Micrograms per litre";
    String sdn_uom_urn "SDN:P06::UGPL";
    String standard_name "mass_concentration_of_picophytoplankton_expressed_as_chlorophyll_in_sea_water";
    String units "ug/L";
  }
  chla_gff_2um_flag {
    String flag_meaning "Accepted_value Suspicious_value Discard_value Below_detection_limit Missing";
    String flag_values 
"AV
SVC
SVD
BDL
MV";
    String long_name "QualityFlag: GF/F to 2um Concentration Of Chlorophyll in Sea Water";
    String standard_name "aggregate_quality_flag";
  }
  chla_gff_3um {
    String ancillary_data "chla_gff_3um_flag";
    Float64 colorBarMaximum 30.0;
    Float64 colorBarMinimum 0.0;
    String long_name "GF/F to 3um Concentration Of Chlorophyll in Sea Water";
    String sdn_parameter_urn "SDN:P01::";
    String sdn_uom_name "Micrograms per litre";
    String sdn_uom_urn "SDN:P06::UGPL";
    String standard_name "mass_concentration_of_picophytoplankton_expressed_as_chlorophyll_in_sea_water";
    String units "ug/L";
  }
  chla_gff_3um_flag {
    String flag_meaning "Accepted_value Suspicious_value Discard_value Below_detection_limit Missing";
    String flag_values 
"AV
SVC
SVD
BDL
MV";
    String long_name "QualityFlag: GF/F to 3um Concentration Of Chlorophyll in Sea Water";
    String standard_name "aggregate_quality_flag";
  }
  chla_bulk_gff {
    String ancillary_data "chla_bulk_gff_flag";
    Float64 colorBarMaximum 30.0;
    Float64 colorBarMinimum 0.0;
    String long_name "Bulk (>GF/F) Concentration Of Chlorophyll in Sea Water";
    String sdn_parameter_name "Concentration of chlorophyll-a {chl-a CAS 479-61-8} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and fluorometry";
    String sdn_parameter_urn "SDN:P01::CPHLFLP1";
    String sdn_uom_name "Micrograms per litre";
    String sdn_uom_urn "SDN:P06::UGPL";
    String standard_name "mass_concentration_of_chlorophyll_in_sea_water";
    String units "ug/L";
  }
  chla_bulk_gff_flag {
    String flag_meaning "Accepted_value Suspicious_value Discard_value Below_detection_limit Missing";
    String flag_values 
"AV
SVC
SVD
BDL
MV";
    String long_name "QualityFlag: Bulk (>GF/F) Concentration Of Chlorophyll in Sea Water";
    String standard_name "aggregate_quality_flag";
  }
 }
  NC_GLOBAL {
    String cdm_data_type "TimeSeriesProfile";
    String cdm_profile_variables "preciseLat, preciseLon, time";
    String cdm_timeseries_variables "latitude, longitude, site_id, work_area";
    String comment 
"##Limitations:
The utilized acidification method is sensitive to interference by high concentrations of chlorophyll c and b. High chlorophyll c concentrations can cause a slight overestimation of chlorophyll a and an underestimation of phaeopigments: negative phaeopigment concentrations can occur during bloom events with high chlorophyll c and healthy phytoplankton. High chlorophyll b concentrations can result in underestimations of chlorophyll a and overestimations of phaeopigments. When chlorophyll b is high relative to chlorophyll a, chlorophyll a can be underestimated by as much as 2.5 fold. For more details see Welschmeyer et al. (1994). These two types of interference likely had an influence on the published chlorophyll and phaeopigment dataset. Notably, comparison with HPLC has shown that stations in the Quadra Island region often experience conditions where chlorophyll b is present in high concentrations and is high relative to chlorophyll a.

The acidification method used to analyze the Hakai Institute dataset has been shown to highly overestimate phaeopigment concentrations based on comparison to concentrations determined by HPLC (Trees et al., 2003). Care should be used when interpreting the published phaeopigment concentrations. 

Prior to 2021, samples that exceeded the manufacturer specified instrument sensitivity range were not diluted to bring their concentrations within the specified range. Samples run above the instrument sensitivity range may have underestimated chlorophyll concentrations due to the blockage of light passing through the sample and a corresponding reduction of fluorescence output (see Turner Trilogy user manual for complete description). Comparison with matching HPLC derived chlorophyll a suggests that the affected samples may be useable, but further analysis is required. This provisional dataset includes these data.

Prior to 2018, annual calibrations of the Hakai Institute Turner Trilogy benchtop fluorometers showed variability in the calibration slopes and acid ratios that were applied to the data. The inconsistent nature of this variability suggests error due to analytical methods rather than instrument drift. As a result, the chlorophyll and phaeopigment concentrations of the data where these calibrations were applied may have error as high as +/- 12 % from this source alone. These data have been included in this provisional dataset. 

Prior to 2018, QA/QC analysis suggests potential influence by acid contamination on the chlorophyll and phaeopigment concentrations (i.e. very low chlorophyll a and high phaeopigment concentrations where the CTD fluorometer and HPLC showed high chlorophyll a). In 2018, methodological controls were put in place to limit acid contamination and the issue ceased. Care has been taken to flag the contaminated data, but data with less obvious contamination effects may not have been captured by QA/QC and may be present in this provisional dataset.

This provisional dataset includes all data flagged as \"suspicious\" (show suspicious trends, but may not be incorrect), but excludes data flagged as \"discard\" (clearly erroneous).";
    String contributor_name "Hakai Institute;Del Bel Belluz, Justin;Fedje, Bryn;Tula Foundation";
    String contributor_role "owner,distributor,publisher;custodian,author,pointOfContact,resourceProvider,principalInvestigator,publisher,originator;custodian,processor,contributor,editor;funder";
    String Conventions "COARDS, CF-1.6, ACDD-1.3";
    String creator_city "Campbell River";
    String creator_country "Canada";
    String creator_email "justin.belluz@hakai.org";
    String creator_institution "Hakai Institute";
    String creator_name "Hakai Institute";
    String creator_ror "https://ror.org/02pry0c91";
    String creator_type "institution";
    String creator_url "https://www.hakai.org/";
    String date_created "2024-03-18";
    String date_modified "2024-07-12T13:35:46.784Z";
    String doi "https://doi.org/10.21966/90h6-b497";
    String featureType "TimeSeriesProfile";
    String geospatial_bounds "-128.5,52.27 -127.4,52.21 -127.2,51.66 -125.6,51.13 -124.8,50.96 -124.1,50.43 -124.7,49.98 -124.9,49.80 -126.7,50.45 -128.1,51.37 -128.4,51.69 -128.5,52.27";
    String geospatial_lat_units "degrees_north";
    String geospatial_lon_units "degrees_east";
    String geospatial_vertical_max "650.0";
    String geospatial_vertical_positive "down";
    String geospatial_vertical_units "m";
    String history 
"2024-11-04T18:01:45Z (source database)
2024-11-04T18:01:45Z https://catalogue.hakai.org/erddap/tabledap/HakaiChlorophyllSampleProvisional.html";
    String id "1755dc37-8d33-4158-8041-c22536fd5771";
    String infoUrl "https://catalogue.hakai.org/dataset/ca-cioos_1755dc37-8d33-4158-8041-c22536fd5771";
    String institution "Hakai Institute";
    String keywords "abundance and biomas, Calvert Island, chlorophyll a, CIOOS:particulateMatter, coastal characterization, Johnstone Strait, phytoplankton, Quadra Island, Salish Sea, Strait of Georgia, water quality";
    String keywords_vocabulary "CIOOS: CIOOS Essential Ocean Variables Vocabulary";
    String license "https://creativecommons.org/licenses/by/4.0";
    String metadata_form "https://hakaiinstitute.github.io/hakai-metadata-entry-form#/en/hakai/7U7b8oPpeTN6gjvXlUCTGJr5pga2/-McQFPAf457LB4-SWmyL";
    String metadata_link "https://catalogue.hakai.org/dataset/ca-cioos_1755dc37-8d33-4158-8041-c22536fd5771";
    String naming_authority "ca.cioos";
    String platform "self-propelled small boat";
    String platform_vocabulary "https://vocab.nerc.ac.uk/collection/L06/current/";
    String product_version "1.0.0";
    String progress "onGoing";
    String project "Oceanography";
    String publisher_city "Campbell River";
    String publisher_country "Canada";
    String publisher_email "data@hakai.org";
    String publisher_institution "Hakai Institute";
    String publisher_name "Hakai Institute";
    String publisher_ror "https://ror.org/02pry0c91";
    String publisher_type "institution";
    String publisher_url "https://www.hakai.org/";
    String sourceUrl "(source database)";
    String standard_name_vocabulary "CF Standard Name Table v79";
    String subsetVariables "work_area, survey, site_id, line_out_depth";
    String summary 
"This dataset is comprised of Hakai Institute chlorophyll and phaeopigment concentrations collected from 2014 to present at stations within the Calvert Island, Johnstone Strait, and the Quadra Island study regions. Samples for these data were collected in the field using Niskin bottles. Sample water (250 ml) was filtered through: 1) a single glass fiber filter (GF/F, nominal pore size 0.7 um) to comprise a bulk measure of phytoplankton chlorophyll and phaeopigment concentrations and 2) a stack of filters (GF/F, 3 um, and 20 um polycarbonate filters) to estimate chlorophyll and phaeopigment concentrations from pico, nano, and micro-phytoplankton, respectively. Filters were extracted for 24 hours in 10 ml of 90% acetone and analyzed on Turner Designs Trilogy laboratory fluorometers using the acidification module and following the method of Holm Hansen et al. (1965). 

Data have been quality controlled by manual inspection which included a comparison of bulk concentrations against the sum of the size-fractionated filter concentrations. Where available, further comparisons were done with other measures of chlorophyll concentrations including in situ CTD chlorophyll fluorescence and high-performance liquid chromatography (HPLC) data.

Data were collected by the Hakai Institute Oceanography and Nearshore programs.";
    String title "Hakai Bulk and Size-Fractionated Chlorophyll and Phaeopigment Concentrations Collected by Niskin Bottle, Provisional";
  }
}

Using tabledap to Request Data and Graphs from Tabular Datasets

tabledap lets you request a data subset, a graph, or a map from a tabular dataset (for example, buoy data), via a specially formed URL. tabledap uses the OPeNDAP (external link)

Data Access Protocol (DAP) (external link)

and its selection constraints (external link)

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.

(easy) You can get data by using the dataset's Data Access Form or Subset form. They make the URL for you.
(easy) You can make a graph or map by using the dataset's Make A Graph form. It makes the URL for you.
(not hard) You can bypass the forms and get the data or make a graph or map by generating the URL by hand or with a computer program or script.

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.