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sdm_conf.yml
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sdm_conf.yml
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# Project title: MPA Europe - Species Distribution Modeling (OBIS contribution)
# Authors: Silas Principe ([email protected]), Pieter Provoost
#
# This is a configuration file for the SDMs. It's used to configure (1) the groups
# for which to obtain the SDMs and (2) the variables to use when fitting the SDMs
# YAML files use the identation to establish list levels, so it's important to keep it consistent
# Don't use tabulation, use 2 spaces instead.
#
# File version: 3 (2024-06-03)
---
# Fill here with the conditions to get the groups.
# For example, the group photosynthesizers have to met the condition
# kingdom == 'Chromista' | kingdom == 'Plantae'
# For character, use single ''
groups:
seabirds: class == 'Aves'
photosynthesizers: kingdom == 'Chromista' | kingdom == 'Plantae'
mammals: class == 'Mammalia'
others: kingdom != 'Chromista' & kingdom != 'Plantae' & class != 'Aves' & class != 'Mammalia'
# Put here the list of variables that will be used for each group
# The order is variables (don't edit) > group name (should be equal to the previous section) > 'hypothesis' > list of variables
# setting an hypothesis ("name of hypothesis") is useful if you want to test multiple variables settings
# If you want to use a single hypothesis, simple leave only one hypothesis.
# Names of variable should be written on the format NAME_VARIANT(e.g. mean, min, max)
# So, for example, to get the mean temperature for the sea we would set: thetao_mean
# Example:
# variables:
# fishes:
# hypothesis1:
# - variable1_mean
# - variable2_max
# hypothesis2:
# - variable2_max
# - variable3_min
variables:
seabirds:
basevars:
- tas_mean
- siconc_max
- thetao_mean
- bathymetry_mean
- distcoast
- sws_max
coastal:
- tas_mean
- siconc_max
- thetao_mean
- bathymetry_mean
- distcoast
- sws_max
- wavefetch
photosynthesizers:
basevars:
- thetao_mean
- bathymetry_mean
- distcoast
- sws_max
- so_min
- no3_mean
- par_mean
coastal:
- thetao_mean
- bathymetry_mean
- distcoast
- sws_max
- so_min
- no3_mean
- par_mean
- wavefetch
#- slope
- rugosity
complexity:
- thetao_mean
- bathymetry_mean
- distcoast
- sws_max
- so_min
- no3_mean
- par_mean
#- slope
- rugosity
mammals:
basevars:
- siconc_max
- thetao_mean
- bathymetry_mean
- distcoast
- sws_max
- so_mean
coastal:
- siconc_max
- thetao_mean
- bathymetry_mean
- distcoast
- sws_max
- so_mean
- wavefetch
others:
basevars:
- thetao_mean
- thetao_range
- bathymetry_mean
- distcoast
- sws_max
- so_mean
- o2_mean
coastal:
- thetao_mean
- thetao_range
- bathymetry_mean
- distcoast
- sws_max
- so_mean
- o2_mean
- wavefetch
- rugosity
#- slope
complexity:
- thetao_mean
- thetao_range
- bathymetry_mean
- distcoast
- sws_max
- so_mean
- o2_mean
- rugosity
#- slope
# END of configuration file