*******************************************************************
* 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 15:55:15 UTC on Fri Mar 08 2019.
Hostname: workshop-11

Accepted options:
--grm simulation_2/5K.unrel0.05
--pheno simulation_2/pheno.common.rep1.txt.phen
--reml
--reml-no-lrt
--out simulation_2/hsq.common.rep1
--thread-num 4

Note: the program will be running on 4 threads.

Reading IDs of the GRM from [simulation_2/5K.unrel0.05.grm.id].
5000 IDs read from [simulation_2/5K.unrel0.05.grm.id].
Reading the GRM from [simulation_2/5K.unrel0.05.grm.bin].
GRM for 5000 individuals are included from [simulation_2/5K.unrel0.05.grm.bin].
Reading phenotypes from [simulation_2/pheno.common.rep1.txt.phen].
Non-missing phenotypes of 5000 individuals are included from [simulation_2/pheno.common.rep1.txt.phen].

5000 individuals are in common in these files.

Performing  REML analysis ... (Note: may take hours depending on sample size).
5000 observations, 1 fixed effect(s), and 2 variance component(s)(including residual variance).
Calculating prior values of variance components by EM-REML ...
Updated prior values: 1014.82 1012.32
logL: -21427.4
Running AI-REML algorithm ...
Iter.	logL	V(G)	V(e)	
1	-21427.35	1029.60671	996.77733	
2	-21427.28	1060.80859	963.95613	
3	-21427.23	1058.82226	965.78747	
4	-21427.23	1058.94953	965.67610	
5	-21427.23	1058.94165	965.68302	
Log-likelihood ratio converged.

Summary result of REML analysis:
Source	Variance	SE
V(G)	1058.941649	111.603749
V(e)	965.683020	98.030123
Vp	2024.624669	42.677057
V(G)/Vp	0.523031	0.050642

Sampling variance/covariance of the estimates of variance components:
1.245540e+04	-1.012199e+04	
-1.012199e+04	9.609905e+03	

Summary result of REML analysis has been saved in the file [simulation_2/hsq.common.rep1.hsq].

Analysis finished at 15:57:17 UTC on Fri Mar 08 2019
Computational time: 2 minutes 1 second(s).