*******************************************************************
* Genome-wide Complex Trait Analysis (GCTA)
* version 1.92.0 beta2
* (C) 2010-2018, The University of Queensland
* Please report bugs to: Jian Yang <jian.yang@uq.edu.au>
*******************************************************************
Analysis started at 15:52:10 UTC on Fri Mar 08 2019.
Hostname: workshop-11

Accepted options:
--bfile simulation_2/5K.unrel0.05
--simu-qt
--simu-hsq 0.5
--simu-causal-loci simulation_2/common.rep1.txt
--out simulation_2/pheno.common.rep1.txt


Reading PLINK FAM file from [simulation_2/5K.unrel0.05.fam].
5000 individuals to be included from [simulation_2/5K.unrel0.05.fam].
Reading PLINK BIM file from [simulation_2/5K.unrel0.05.bim].
232677 SNPs to be included from [simulation_2/5K.unrel0.05.bim].
Reading PLINK BED file from [simulation_2/5K.unrel0.05.bed] in SNP-major format ...
Genotype data for 5000 individuals and 232677 SNPs to be included from [simulation_2/5K.unrel0.05.bed].
Simulation parameters:
Number of simulation replicate(s) = 1 (Default = 1)
Heritability  = 0.5 (Default = 0.1)

Reading a list of SNPs (as causal variants) from [simulation_2/common.rep1.txt].
1000 SNPs (as causal variants) to be included from [simulation_2/common.rep1.txt].
1000 unspecified QTL effects are generated from standard normal distribution.
Calculating allele frequencies ...
Recoding genotypes (individual major mode) ...
Simulated QTL effect(s) have been saved in [simulation_2/pheno.common.rep1.txt.par].
Simulating GWAS based on the real genotyped data with 1 replicate(s) ...
Simulated phenotypes of 5000 individuals have been saved in [simulation_2/pheno.common.rep1.txt.phen].

Analysis finished at 15:52:34 UTC on Fri Mar 08 2019
Computational time: 23.885504 second(s).