; Syntax file for the settings file of quantiNemo - contributed by Samuel Neuenschwander
; 06-09-2011

C=1

[Syntax]
Namespace1 = 6
IgnoreCase = No
InitKeyWordChars = A-Za-z_
KeyWordChars = A-Za-z0-9_
BracketChars = {[()]}
OperatorChars = =!
PreprocStart = 
SyntaxStart =
SyntaxEnd =
CommentStart = #/
CommentEnd = /#
SingleComment = #
SingleCommentCol =
SingleCommentAlt =
SingleCommentColAlt =
StringStart = "
StringEnd = "
StringEsc = \
CharStart = '
CharEnd = '
CharEsc =

;parameters
[Keywords 1]


breed_model
quanti_ini_genotypes 
ntrl_ini_genotypes 
dispersal_border_model
dispersal_k_growth_rate 
dispersal_k_max
dispersal_k_max_growth
dispersal_k_min
dispersal_k_symmetry
dispersal_lattice_dims
dispersal_lattice_range
dispersal_model
dispersal_propagule_prob
dispersal_rate
dispersal_rate_fem
dispersal_rate_mal
extinction_rate
filename 
folder 
generations
genetic_map_output
growth_rate
logfile
logfile_type
mating_males
mating_nb_offspring_model
mating_proportion
mating_system
mean_fecundity
ntrl_all
ntrl_allelic_file
ntrl_genot_age
ntrl_genot_dir
ntrl_genot_logtime
ntrl_genot_script
ntrl_genot_sex
ntrl_ini_allele_model
ntrl_loci
ntrl_loci_positions
ntrl_loci_positions_random
ntrl_mutation_model
ntrl_mutation_rate
ntrl_mutation_shape
ntrl_nb_trait
ntrl_save_genotype
overwrite
patch_capacity
patch_capacity_fem
patch_capacity_mal
patch_dir_sel_growth_rate
patch_dir_sel_growth_rate_fem
patch_dir_sel_growth_rate_mal
patch_dir_sel_growth_rate_var
patch_dir_sel_max
patch_dir_sel_max_fem
patch_dir_sel_max_growth
patch_dir_sel_max_growth_fem
patch_dir_sel_max_growth_mal
patch_dir_sel_max_growth_var
patch_dir_sel_max_mal
patch_dir_sel_min
patch_dir_sel_min_fem
patch_dir_sel_min_mal
patch_dir_sel_symmetry
patch_dir_sel_symmetry_fem
patch_dir_sel_symmetry_mal
patch_dir_sel_symmetry_var
patch_ini_fem
patch_ini_mal
patch_ini_size
patch_number
patch_stab_sel_intensity
patch_stab_sel_intensity_fem
patch_stab_sel_intensity_mal
patch_stab_sel_intensity_var
patch_stab_sel_optima
patch_stab_sel_optima_fem
patch_stab_sel_optima_mal
patch_stab_sel_optima_var
postexec_script
quanti_all
quanti_allelic_file
quanti_allelic_var
quanti_dominance_file
quanti_dominance_mean
quanti_dominance_var
quanti_environmental_model
quanti_environmental_proportion
quanti_epistatic_file
quanti_epistatic_var
quanti_geno_value_age
quanti_geno_value_dir
quanti_geno_value_logtime
quanti_geno_value_script
quanti_geno_value_sex
quanti_genot_age
quanti_genot_dir
quanti_genot_logtime
quanti_genot_script
quanti_genot_sex
quanti_heritability
quanti_ini_allele_model
quanti_loci
quanti_loci_positions
quanti_loci_positions_random
quanti_mutation_model
quanti_mutation_rate
quanti_mutation_shape
quanti_nb_trait
quanti_output
quanti_phenot_dir
quanti_phenot_logtime
quanti_phenot_script
quanti_phenot_sex
quanti_save_geno_value
quanti_save_genotype
quanti_save_phenotype
quanti_selection_model
quanti_va_model
regulation_model_adults
regulation_model_offsprng
replicates
sampled_patches
seed
sex_ratio
stat
stat_dir
stat_log_time
stat_save

;life cycle events
[Keywords 2]
breed	
save_stats
save_files
breed 
aging	
disperse	
regulation
store	
extinction


;stat option
[Keywords 3]

off.demo
adlt.demo
off.nbInd
off.nbFem
off.nbMal
off.meanInd
off.meanFem
off.meanMal
off.sexRatio
off.nbPops
off.nbInd_p
off.nbFem_p
off.nbMal_p
adlt.nbInd
adlt.nbFem
adlt.nbMal
adlt.meanInd
adlt.meanFem
adlt.meanMal
adlt.sexRatio
adlt.nbPops
adlt.nbInd_p
adlt.nbFem_p
adlt.nbMal_p

ext.rate

fecundity
fem.meanFec
fem.varFec
mal.meanFec
mal.varFec

off.kinship
adlt.kinship
off.fsib
off.phsib
off.mhsib
off.nsib 
off.self 
adlt.fsib
adlt.phsib
adlt.mhsib
adlt.nsib 
adlt.self 

migration
emigrants 
immigrants
residents 
immigrate 
immigrants
colonisers
colon.rate

fitness
VwW
VwB
meanW_p
varW_p

quanti
q.VgW
q.VgB
q.VpW
q.VpB
q.VaW
q.qst
q.varA_p 
q.meanG_p
q.varG_p 
q.meanP_p
q.varP_p

q.off.coa
q.off.theta
q.off.alpha
q.off.thetaFF
q.off.thetaMM
q.off.thetaFM
q.off.coa.fsib 
q.off.coa.phsib
q.off.coa.mhsib
q.off.coa.nsib 
q.off.theta_p
q.off.alpha_pair
q.adlt.coa
q.adlt.theta
q.adlt.alpha
q.adlt.thetaFF
q.adlt.thetaMM
q.adlt.thetaFM
q.adlt.coa.fsib 
q.adlt.coa.phsib
q.adlt.coa.mhsib
q.adlt.coa.nsib 
q.adlt.theta_p
q.adlt.alpha_pair

q.off.gendiv
q.off.nbAll
q.off.meanAll 
q.off.nbFixLoc
q.off.meanFixLoc 
q.off.ho
q.off.hs
q.off.ht
q.off.nbAll_p
q.off.nbFixLoc_p
q.off.ho_p
q.off.hs_p
q.adlt.gendiv
q.adlt.nbAll
q.adlt.meanAll 
q.adlt.nbFixLoc
q.adlt.meanFixLoc 
q.adlt.ho
q.adlt.hs
q.adlt.ht
q.adlt.nbAll_p
q.adlt.nbFixLoc_p
q.adlt.ho_p
q.adlt.hs_p

q.off.fstat
q.off.fst
q.off.fis
q.off.fit
q.off.fst_pair
q.adlt.fstat
q.adlt.fst
q.adlt.fis
q.adlt.fit
q.adlt.fst_pair

q.off.fstat.wc
q.off.fst.wc
q.off.fis.wc
q.off.fit.wc
q.off.fst.wc_pair
q.adlt.fstat.wc
q.adlt.fst.wc
q.adlt.fis.wc
q.adlt.fit.wc
q.adlt.fst.wc_pair

q.off.a.freq
q.adlt.a.freq

n.off.coa
n.off.theta
n.off.alpha
n.off.thetaFF
n.off.thetaMM
n.off.thetaFM
n.off.coa.fsib 
n.off.coa.phsib
n.off.coa.mhsib
n.off.coa.nsib 
n.off.theta_p
n.off.alpha_pair
n.adlt.coa
n.adlt.theta
n.adlt.alpha
n.adlt.thetaFF
n.adlt.thetaMM
n.adlt.thetaFM
n.adlt.coa.fsib 
n.adlt.coa.phsib
n.adlt.coa.mhsib
n.adlt.coa.nsib 
n.adlt.theta_p
n.adlt.alpha_pair

n.off.gendiv
n.off.nbAll
n.off.meanAll 
n.off.nbFixLoc
n.off.meanFixLoc 
n.off.ho
n.off.hs
n.off.ht
n.off.nbAll_p
n.off.nbFixLoc_p
n.off.ho_p
n.off.hs_p
n.adlt.gendiv
n.adlt.nbAll
n.adlt.meanAll 
n.adlt.nbFixLoc
n.adlt.meanFixLoc 
n.adlt.ho
n.adlt.hs
n.adlt.ht
n.adlt.nbAll_p
n.adlt.nbFixLoc_p
n.adlt.ho_p
n.adlt.hs_p

n.off.fstat
n.off.fst
n.off.fis
n.off.fit
n.off.fst_pair
n.adlt.fstat
n.adlt.fst
n.adlt.fis
n.adlt.fit
n.adlt.fst_pair

n.off.fstat.wc
n.off.fst.wc
n.off.fis.wc
n.off.fit.wc
n.off.fst.wc_pair
n.adlt.fstat.wc
n.adlt.fst.wc
n.adlt.fis.wc
n.adlt.fit.wc
n.adlt.fst.wc_pair

n.off.a.freq
n.adlt.a.freq

[Preprocessor keywords]