On Apr 16, 2018, at 03:10, Lowry, Roy K. <[email protected]
<mailto:[email protected]>> wrote:
Forgot to do reply all....
Please note that I partially retired on 01/11/2015. I am now only
working 7.5 hours a week and can only guarantee e-mail response on
Wednesdays, my day in the office. All vocabulary queries should be
sent [email protected] <mailto:[email protected]>. Please
also use this e-mail if your requirement is urgent.
------------------------------------------------------------------------
*From:*Lowry, Roy K.
*Sent:*16 April 2018 11:09
*To:*Daniel Neumann
*Subject:*Re: [CF-metadata] Standard Names to support Trac ticket 99
Thanks Daniel,
To clarify LSID isn't a database, it's an identifier for an organism
that neatly brings together multiple taxonomies under the single
umbrella of the Catalogue of Life project. It also resolves, actually
in multiple ways, into a URL that then provides access into a
database providing information on that organism.
We came to the conclusion that we should use LSIDs in CF in the first
round of discussions on Trac 99. My quandary is not whether we should
use them, but whether the Standard Name should specify 'lsid' or just
'identifier'. 'Identifier' is what we discussed, but 'lsid' opens
the door for future Standard Names based on other governances should
there be a need to deal with entities not covered by lsids. I'm aware
of one possible issue related to coccoliths plus the possibility of
dealing with organism parts (e.g. cod livers).
Cheers, Roy.
Please note that I partially retired on 01/11/2015. I am now only
working 7.5 hours a week and can only guarantee e-mail response on
Wednesdays, my day in the office. All vocabulary queries should be
sent [email protected] <mailto:[email protected]>. Please
also use this e-mail if your requirement is urgent.
------------------------------------------------------------------------
*From:*Daniel Neumann <[email protected]
<mailto:[email protected]>>
*Sent:*16 April 2018 10:44
*To:*Lowry, Roy K.
*Subject:*Re: [CF-metadata] Standard Names to support Trac ticket 99
Dear Roy,
Thank you for bringing this topic forward!
I contacted the responsible person for our institute's data
publishing und metadata policy and will talk to her about the choice
of the LSID database. She is more into that topic than I am. It may
take some days.
Cheers,
Daniel
On 13.04.2018 16:02, Lowry, Roy K. wrote:
Dear All,
Here is an initial batch of 8 Standard Names to support the CF taxon
dimension. Two are dimension labels whilst the other six are
measurements to which the taxon is a co-ordinate. Five of these are
to cover Daniel's proposal that prompted the resurrection of Ticket 99.
I've presented a summary list followed by a full list with units and
definitions. I have one uncertainty in my mind
(biological_taxon_label versus biological_taxon_lsid) where I would
really appreciate input.
Cheers, Roy.
biological_taxon_name
biological_taxon_identifier or biological_taxon_lsid – any
preferences????
number_concentration_of_biological_taxon_in_sea_water
mass_concentration_of_biological_taxon_expressed_as_carbon_in_sea_water
mass_concentration_of_biological_taxon_expressed_as_chlorophyll_in_sea_water
mass_concentration_of_biological_taxon_expressed_as_nitrogen_in_sea_water
mole_concentration_of_biological_taxon_expressed_as_carbon_in_sea_water
mole_concentration_of_biological_taxon_expressed_as_nitrogen_in_sea_water
biological_taxon_name
A plaintext human-readable label, usually a Latin binomial such as
Calanus finmarchicus, applied to a biological taxon. Biological
taxon is a name or other label identifying an organism or a group of
organisms as belonging to a unit of classification in a hierarchical
taxonomy.
dimensionless
biological_taxon_identifier
An opaque label, most usefully a URI that resolves to an
authoritative information source, applied to a biological taxon.
Biological taxon is a name or other label identifying an organism or
a group of organisms as belonging to a unit of classification in a
hierarchical taxonomy. The identifier adopted for CF is the Life
Science Identifier (LSID), a URN with the syntax
‘urn:lsid:<Authority>:<Namespace>:<ObjectID>[:<Version>]’. For
example, the copepod Calocalanus pavo may be represented by
LSIDs ‘urn:lsid:marinespecies.org
<http://marinespecies.org>:taxname:104669’ (based on WoRMS)
and urn:lsid:itis.gov <http://itis.gov>:itis_tsn:85335’ (based on
ITIS). These URNs may be converted to URLs delivering RDF by
prefixing with 'http://lsid.tdwg.org/'.
dimensionless
*OR*
*
*
biological_taxon_lsid
The Life Science Identifier (LSID) is a standard URI for a
biological taxon. Biological taxon is a name or other label
identifying an organism or a group of organisms as belonging to a
unit of classification in a hierarchical taxonomy. The LSID is a URN
with the syntax
‘urn:lsid:<Authority>:<Namespace>:<ObjectID>[:<Version>]’. For
example, the copepod Calocalanus pavo may be represented by
LSIDs ‘urn:lsid:marinespecies.org
<http://marinespecies.org>:taxname:104669’ (based on WoRMS)
and urn:lsid:itis.gov <http://itis.gov>:itis_tsn:85335’ (based on
ITIS). These URNs may be converted to URLs delivering RDF by
prefixing with 'http://lsid.tdwg.org/'.
dimensionless
number_concentration_of_biological_taxon_in_sea_water
Number concentration means the count of an entity per unit volume
and is used in theconstruction ‘number_concentration_of_X_in_Y’,
where X is a material constituent of Y.. Biological taxon is a name
or other label identifying an organism or a group of organisms as
belonging to a unit of classification in a hierarchical taxonomy.
Number concentration of biota is also referred to as abundance.
m-3
mass_concentration_of_biological_taxon_expressed_as_carbon_in_sea_water
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'. The phrase 'expressed_as' is used in
the construction ‘A_expressed_as_B’, where B is a chemical
constituent of A. It means that the quantity indicated by the
standard name is calculated solely with respect to the B contained
in A, neglecting all other chemical constituents of A. Mass
concentration of biota expressed as carbon is also referred to as
carbon biomass. Biological taxon is a name or other label
identifying an organism or a group of organisms as belonging to a
unit of classification in a hierarchical taxonomy.
kg m-3
mass_concentration_of_biological_taxon_expressed_as_chlorophyll_in_sea_water
Mass concentration means mass per unit volume and is used in the
construction ‘mass_concentration_of_X_in_Y’, where X is a
materialconstituent 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 phrase
'expressed_as' is used in the
construction ‘A_expressed_as_B’, where B is a chemical constituent
of A. It means that the quantity indicated by the standard name is
calculatedsolely with respect to the B contained in A, neglecting
all other chemical constituents of A. Chlorophyll means all
naturally occurring pigments of the chlorophyll group. Biological
taxon is a name or other label identifying an organism or a group of
organisms as belonging to a unit of classification in a hierarchical
taxonomy.
kg m-3
mass_concentration_of_biological_taxon_expressed_as_nitrogen_in_sea_water
Mass concentration means mass per unit volume and is used in the
construction ‘mass_concentration_of_X_in_Y’, where X is a
materialconstituent 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'. The phrase 'expressed_as' is used in
the construction ‘A_expressed_as_B’, where B is a chemical
constituent of A.It means that the quantity indicated by the
standard name is calculated solely with respect to the B contained
in A, neglecting all other chemical constituents of A. Mass
concentration of biota expressed as nitrogen is also referred to as
nitrogen biomass. Biological taxon is a name or other label
identifying an organism or a group of organisms as belonging to a
unit of classification in a hierarchical taxonomy.
kg m-3
mole_concentration_of_biological_taxon_expressed_as_carbon_in_sea_water
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 species denoted by X may be described by asingle term
such as 'nitrogen' or a phrase such as 'nox_expressed_as_nitrogen'.
The phrase 'expressed_as' is used in the construction
‘A_expressed_as_B’, where B is a chemical constituent of A. It means
that the quantity indicated by the standard name is calculated
solely with respect to the B contained in A, neglecting all other
chemical constituents of A. Biological taxon is a name or other
label identifying an organism or a group of organisms as belonging
to a unit of classification in a hierarchical taxonomy.
mol m-3
mole_concentration_of_biological_taxon_expressed_as_nitrogen_in_sea_water
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 species denoted by X may be described by asingle term
such as 'nitrogen' or a phrase such as 'nox_expressed_as_nitrogen'.
The phrase 'expressed_as' is used in the construction
‘A_expressed_as_B’, where B is a chemical constituent of A. It means
that the quantity indicated by the standard name is calculated
solely with respect to the B contained in A, neglecting all other
chemical constituents of A. Biological taxon is a name or other
label identifying an organism or a group of organisms as belonging
to a unit of classification in a hierarchical taxonomy.
mol m-3
Please note that I partially retired on 01/11/2015. I am now only
working 7.5 hours a week and can only guarantee e-mail response on
Wednesdays, my day in the office. All vocabulary queries should be
sent [email protected] <mailto:[email protected]>. Please
also use this e-mail if your requirement is urgent.
------------------------------------------------------------------------
This message (and any attachments) is for the recipient only. NERC
is subject to the Freedom of Information Act 2000 and the contents
of this email and any reply you make may be disclosed by NERC unless
it is exempt from release under the Act. Any material supplied to
NERC may be stored in an electronic records management system.
------------------------------------------------------------------------
_______________________________________________
CF-metadata mailing list
[email protected] <mailto:[email protected]>
http://mailman.cgd.ucar.edu/mailman/listinfo/cf-metadata
--
Daniel Neumann
Leibniz Institute for Baltic Sea Research Warnemuende
Physical Oceanography and Instrumentation
Seestrasse 15
18119 Rostock
Germany
phone: +49-381-5197-287
fax: +49-381-5197-114 or 440
e-mail:[email protected]
<mailto:[email protected]>
------------------------------------------------------------------------
This message (and any attachments) is for the recipient only. NERC is
subject to the Freedom of Information Act 2000 and the contents of
this email and any reply you make may be disclosed by NERC unless it
is exempt from release under the Act. Any material supplied to NERC
may be stored in an electronic records management system.
------------------------------------------------------------------------
_______________________________________________
CF-metadata mailing list
[email protected] <mailto:[email protected]>
http://mailman.cgd.ucar.edu/mailman/listinfo/cf-metadata
