roy-lowry
commented
2 years ago This proposal raises a couple of points where I'd appreciate the opinions of others.
1) There is moles_of_particulate_biogenic_silica_per_unit_mass_in_sewater (should be corrected to moles_of_particulate_biogenic_silica_per_unit_mass_in_sea_water) There is already a Standard Name mole_concentration_of_particulate_organic_matter_expressed_as_silicon_in_sea_water. As it is a mole concentration and there is one atom of silicon per molecule of silica the two Standard Names look to me to be descriptions of the same measurement. If not, what is the difference and how can this be clearly expressed in the name description?
2) There is a set of three phycoerythrin concentrations in the proposal such as mass_concentration_of_phycoerythrin_4_in_sea_water. The reason there are three is because they are for size fractionated data where the pigment concentration is measured in particles of different size - in this case 0.4-5 micron, 5-10 micron and >10 micron. My question is 'How should this be encoded in Standard Name grammar'? There is a sort of precedent with Standard Names for size fractionated atmospheric particulates or aerosols but these are based on well-known community names for size fractions such as pm10 for particles with a diameter of 10 microns or less. There is no such convention and are lot more variability (I've come across dozens of sea water particle size classes in size fractionated data) in the oceanographic community. The proposal suggests specifying the size class as a qualification of the measurand name such as phycoerythrin_4. I'm not comfortable with this because the substance measured for all particle size classes is the same thing. So as a starting point how about:
mass_concentration_of_particulate_0.4to5um_phycoerythrin_in_sea_water mass_concentration_of_particulate_5to10um_phycoerythrin_in_sea_water mass_concentration_of_particulate_gt10um_phycoerythrin_in_sea_water
for the three names proposed?
JonathanGregory
DocOtak
fcarvalhopacheco
ngalbraith
feggleton
Proposer's name:
Reviewers & Contributors:
Date: 2021-10-19
Notes: The following are 19 proposed names and descriptions of some of the biogeochemical variables collected during the Hawaii Ocean Time-Series (HOT) research cruises. We include generic terminology used for other similar CF names and a description corresponding to the specific HOT variable, constructed based on definitions from HOT documentation or other sources (e.g., Natural Environment Research Council Vocabulary Server (NERC). The corresponding reference is also included for each term whenever possible. The current variable names and units used by the HOT program and the Biological and Chemical Oceanography Data Management Office (BCO-DMO / HOT Niskin and Water Bottle Dataset) can be seen on the following links:
-HOT Niskin bottle samples parameters: https://hahana.soest.hawaii.edu/FTP/hot/water/Readme.water.jgofs
-HOT Particle Flux parameters: https://datadocs.bco-dmo.org/docs/302/HOT/data_docs/737393/1/Readme.flux
-BCO-DMO / HOT - Niskin and Water Bottle Dataset: https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_3773/index.html
-BCO-DMO / HOT - Particle Flux information: https://www.bco-dmo.org/dataset/737393
Google Drive doc - https://docs.google.com/document/u/1/d/1TVfbiHRP-0zR3e7nWJJLEIR2giBmbDNQA7G8aCfJvAY/edit?usp=drive_web&ouid=105024710616361688336
See the other proposals
cf-convention/vocabularies#151
cf-convention/vocabularies#145
(1)Term:
mole_concentration_of_guanosine_triphosphate_in_sea_waterDescription: Mole concentration means number of moles per unit volume, also called "molarity", and is used in the construction "mole_concentration_of_X_in_Y", where X is a material constituent of Y. A chemical or biological species denoted by X may be described by a single term such as "nitrogen" or a phrase such as "nox_expressed_as_nitrogen". The chemical formula of guanosine triphosphate is C10H16N5O14P3.
Units: [mol m-3]
(2)Term:
mass_concentration_of_chlorophyll_c4_in_sea_water-Definition: Mass concentration means mass per unit volume and is used in the construction mass_concentration_of_X_in_Y, where X is a material constituent of Y. A chemical species denoted by X may be described by a single term such as 'nitrogen' or a phrase such as 'nox_expressed_as_nitrogen'. Chlorophylls are the green pigments found in most plants, algae and cyanobacteria; their presence is essential for photosynthesis to take place. There are several different forms of chlorophyll that occur naturally. All contain a chlorin ring (chemical formula C20H16N4) which gives the green pigment and a side chain whose structure varies. The naturally occurring forms of chlorophyll contain between 35 and 55 carbon atoms.
-Units: [kg m-3]
(3)Term:
moles_of_hydrogen_peroxide_per_unit_mass_in_sea_water-Definition: The construction "moles_of_X_per_unit_mass_in_Y" is also called "molality" of X in Y, where X is a material constituent of Y. A chemical or biological species denoted by X may be described by a single term such as "nitrogen" or a phrase such as "nox_expressed_as_nitrogen". The chemical formula for hydrogen peroxide is H2O2.
-Units: [mol kg-1]
(4)Term:
moles_of_nitrous_oxide_per_unit_mass_in_sea_water-Definition: ‘The construction "moles_of_X_per_unit_mass_in_Y" is also called "molality" of X in Y, where X is a material constituent of Y. A chemical or biological species denoted by X may be described by a single term such as "nitrogen" or a phrase such as "nox_expressed_as_nitrogen". The chemical formula for nitrous oxide is N2O. The equivalent term in the NERC P01 Parameter Usage Vocabulary may be found at http://vocab.nerc.ac.uk/collection/P01/current/DN2OZZ01/.
-Units: [mol kg-1]
(5)Term:
moles_of_particulate_biogenic_silica_per_unit_mass_in_sea_water-Definition: The construction "moles_of_X_per_unit_mass_in_Y" is also called "molality" of X in Y, where X is a material constituent of Y. A chemical or biological species denoted by X may be described by a single term such as "nitrogen" or a phrase such as "nox_expressed_as_nitrogen". "Biogenic" means influenced, caused, or created by natural processes. The equivalent term in the NERC S27 Parameter Semantic model Chemical Substances may be found at http://vocab.nerc.ac.uk/collection/S27/current/CS003128/.
-Units: [mol kg-1]
(6)Term:
moles_of_particulate_inorganic_carbon_per_unit_mass_of_sea_water-Definition: The construction "moles_of_X_per_unit_mass_in_Y" is also called "molality" of X in Y, where X is a material constituent of Y. A chemical or biological species denoted by X may be described by a single term such as "nitrogen" or a phrase such as "nox_expressed_as_nitrogen". The equivalent term in the NERC P09 Parameter Usage Vocabulary may be found at http://vocab.nerc.ac.uk/collection/P09/current/PICP/1/.
-Units: [mol kg-1]
(7)Term:
mass_concentration_of_phycoerythrin_4_in_sea_water-Definition: Mass concentration means mass per unit volume and is used in the construction mass_concentration_of_X_in_Y, where X is a material constituent of Y. A chemical species denoted by X may be described by a single term such as 'nitrogen' or a phrase such as 'nox_expressed_as_nitrogen'. “Phycoerythrin-4” is the concentration of phycoerythrin in the 5-0.4 µm fractions per unit volume of the water body.
-Units: [kg m-3]
(8)Term:
mass_concentration_of_phycoerythrin_5_in_sea_water-Definition: Mass concentration means mass per unit volume and is used in the construction mass_concentration_of_X_in_Y, where X is a material constituent of Y. A chemical species denoted by X may be described by a single term such as 'nitrogen' or a phrase such as 'nox_expressed_as_nitrogen'. “Phycoerythrin-5” is the concentration of phycoerythrin in the 10-5 µm fractions per unit volume of the water body.
-Units: [kg m-3]
(9)Term:
mass_concentration_of_phycoerythrin_10_in_sea_water-Definition: Mass concentration means mass per unit volume and is used in the construction mass_concentration_of_X_in_Y, where X is a material constituent of Y. A chemical species denoted by X may be described by a single term such as 'nitrogen' or a phrase such as 'nox_expressed_as_nitrogen'. “Phycoerythrin-10” is the concentration of phycoerythrin >10 µm fractions per unit volume of the water body.
-Units: [kg m-3]
(10) HOT term:
delta_15N_PNCF term:enrichment_of_15N_in_particulate_nitrogen_in_sea_water_expressed_as_lowercase_delta_15N_relative_to_atmospheric_nitrogen-Definition: Isotopic enrichment of 15N, often called delta 15N, is a measure of the ratio of stable isotopes 15N:14N.
-Units: [1e-3] (CF); [permil vs. air-N] (HOT)
-References:
See HOT: https://www.bco-dmo.org/dataset-parameter/854930 NERC-1:http://vocab.nerc.ac.uk/collection/P09/current/N15D/4/ NERC-2:http://vocab.nerc.ac.uk/collection/P01/current/D15NOPXX/4/ https://www.ldeo.columbia.edu/~peter/Resources/Seminar/readings/Sigman01EOS.pdf
(11) HOT Term:
delta_13C_PCCF Term:enrichment_of_13C_in_particulate_carbon_in_sea_water_expressed_as_lowercase_delta_13C_relative_to_VPDB-Definition: Isotopic enrichment of 13C, often called delta 13C, is a generic term for the isotopic enrichment of carbon-13 (13C) expressed as the delta-13C value in the total particulate carbon fraction.
-Units: [1e-3] (CF); [permil vs. VPDB] (HOT)
-References: See HOT: https://www.bco-dmo.org/dataset-parameter/849829 NERC-1:http://vocab.nerc.ac.uk/collection/P01/current/D13CMIXX/3/ NERC-2:http://vocab.nerc.ac.uk/collection/P09/current/C13D/3/
SEDIMENT TRAP VARIABLES
Please see all the HOT sediment trap variables here:
See HOT processing description for sediment traps here:
Processing Description)(12)Term:
sinking_mass_flux_of_carbon_in_particles_in_sea_water-Definition: In accordance with common usage in geophysical disciplines, "flux" implies per unit area, called "flux density" in physics. 'Sinking' is the gravitational settling of particulate matter suspended in a liquid. A sinking flux is positive downwards and is calculated relative to the movement of the surrounding fluid.
-Units: [kg m-2 s-1]
(13)Term:
sinking_mass_flux_of_nitrogen_in_particles_in_sea_water-Definition: In accordance with common usage in geophysical disciplines, "flux" implies per unit area, called "flux density" in physics. 'Sinking' is the gravitational settling of particulate matter suspended in a liquid. A sinking flux is positive downwards and is calculated relative to the movement of the surrounding fluid.
-Units: [kg m-2 s-1]
(14)Term:
sinking_mass_flux_of_mass_in_particles_in_sea_water-Definition: In accordance with common usage in geophysical disciplines, "flux" implies per unit area, called "flux density" in physics. 'Sinking' is the gravitational settling of particulate matter suspended in a liquid. A sinking flux is positive downwards and is calculated relative to the movement of the surrounding fluid.
-Units: [kg m-2 s-1]
(15)Term:
sinking_mass_flux_of_phosphorus_in_particles_in_sea_water-Definition: In accordance with common usage in geophysical disciplines, "flux" implies per unit area, called "flux density" in physics. 'Sinking' is the gravitational settling of particulate matter suspended in a liquid. A sinking flux is positive downwards and is calculated relative to the movement of the surrounding fluid.
-Units: [kg m-2 s-1]
(16)Term:
sinking_mass_flux_of_silica_in_particles_in_sea_water-Definition: In accordance with common usage in geophysical disciplines, "flux" implies per unit area, called "flux density" in physics. 'Sinking' is the gravitational settling of particulate matter suspended in a liquid. A sinking flux is positive downwards and is calculated relative to the movement of the surrounding fluid.
-Units: [kg m-2 s-1]
(17)Term:
enrichment_of_15N_in_particulate_nitrogen_in_particles_in_sea_water_expressed_as_lowercase_delta_15N_relative_to_atmospheric_nitrogen-Definition: Isotopic enrichment of 15N, often called d15N or delta 15N (lower case delta), is a measure of the ratio of stable isotopes 15N:14N. Reference: Karl, D. (2018) Sediment trap flux measurements from the Hawaii Ocean Time-Series (HOT) project at station ALOHA. Biological and Chemical Oceanography Data Management Office (BCO-DMO). doi:10.1575/1912/bco-dmo.737393.1.
-Units: [1e-3] (CF); [permil vs. air-N2] (HOT)
-References:
Processing Description)(18)Term:
enrichment_of_13C_in_inorganic_carbon_in_particles_in_sea_water_expressed_as_lowercase_delta_13C_relative_to_VPDB-Definition: Isotopic enrichment of 13C, often called d13C or delta 13C (lower case delta), is a measure of the ratio of stable isotopes 15N:14N. The equivalent term in the NERC P01 Parameter Usage Vocabulary may be found at http://vocab.nerc.ac.uk/collection/P01/current/D13CMITX/4/. Reference: Karl, D. (2018) Sediment trap flux measurements from the Hawaii Ocean Time-Series (HOT) project at station ALOHA. Biological and Chemical Oceanography Data Management Office (BCO-DMO). doi:10.1575/1912/bco-dmo.737393.1.
-Units: [1e-3] (CF); [permil vs. VPDB] (HOT)
-References:
Processing Description)(19)Term:
sinking_mass_flux_of_particulate_inorganic_carbon_in_particles_in_sea_water-Definition: In accordance with common usage in geophysical disciplines, "flux" implies per unit area, called "flux density" in physics. 'Sinking' is the gravitational settling of particulate matter suspended in a liquid. A sinking flux is positive downwards and is calculated relative to the movement of the surrounding fluid.
-Units: [kg m-2 s-1]