Ticket #65 (closed enhancement: fixed)

Opened 3 years ago

Last modified 3 years ago

MIxS minor amendments

Reported by: pthoopen Owned by: pyilmaz
Priority: minor Component: MIxS general
Version: 4.1 Keywords:
Cc: Sensitive: no

Description

Attached file contains suggestions of minor amendments to the MIxS, v4.0, based on submitters' feedback and on development of new ENA sample checklist management workflows.

Attachments

MIxS_v4.0_amendments.xlsx (40.3 KB) - added by pthoopen 3 years ago.
summary of MIxS, v4.0, minor amendments

Change History

Changed 3 years ago by pthoopen

summary of MIxS, v4.0, minor amendments

comment:1 Changed 3 years ago by pyilmaz

  • Status changed from new to assigned
  • Version changed from 5.0 to 4.1

comment:2 Changed 3 years ago by pyilmaz

  • Status changed from assigned to closed
  • Resolution set to fixed

biochem_oxygen_demand > amount of dissolved oxygen needed by aerobic biological organisms in a body of water to break down organic material present in a given water sample at certain temperature over a specific time period

chem_oxygen_demand > a measure of the capacity of water to consume oxygen during the decomposition of organic matter and the oxidation of inorganic chemicals such as ammonia and nitrite

salinity > salinity is the total concentration of all dissolved salts in a water sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater

samp_salinity > salinity is the total concentration of all dissolved salts in a liquid or solid (in the form of an extract obtained by centrifugation) sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater

temperature > no change; changing the name of the descriptor of one of the most used environmental metadata items is better for major release

mean annual and seasonal temperature > split into annual_temp and season_temp

merge specific host, host taxid, host common name into host scientific name > no change; reason too big change, and we need to discuss why a merge is necessary

remove duplication in all environmental packages > which other duplications? the example here is not really a duplication. MIxS core item refers to whether the lifestyle of the organism is aerobic, anaerobic, facultative; and the latter is a qualitative assessment of the oxygen amount in the sample - microxic, dysoxic, suboxic. We can probably also discuss to extend the CV of oxygenation status of sample

Note: See TracTickets for help on using tickets.