******************************************************************* * Genome-wide Complex Trait Analysis (GCTA) * version v1.95.1 Linux * Built at Feb 2 2026 16:51:42, by GCC 8.4 * (C) 2010-present, Yang Lab, Westlake University * Please report bugs to Jian Yang ******************************************************************* Analysis started at 17:49:34 MDT on Mon Jun 01 2026. Hostname: ip-10-0-202-51 Accepted options: --grm mydata_allSNPs --pheno mydata.phen --mpheno 1 --reml --out trait1_with_relatives Note: the program will be running on 16 threads. Reading IDs of the GRM from [mydata_allSNPs.grm.id]. 6000 IDs are read from [mydata_allSNPs.grm.id]. Reading the GRM from [mydata_allSNPs.grm.bin]. GRM for 6000 individuals are included from [mydata_allSNPs.grm.bin]. Reading phenotypes from [mydata.phen]. There are 2 traits specified in the file [mydata.phen]. Trait #1 is included for analysis. Non-missing phenotypes of 6000 individuals are included from [mydata.phen]. 6000 individuals are in common in these files. Performing REML analysis ... (Note: may take hours depending on sample size). 6000 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: 0.488542 0.516558 logL: -2756.86 Running AI-REML algorithm ... Iter. logL V(G) V(e) 1 -2751.40 0.45451 0.53969 2 -2745.53 0.43217 0.55594 3 -2742.84 0.41738 0.56720 4 -2741.61 0.40755 0.57494 5 -2741.05 0.40098 0.58022 6 -2740.80 0.38708 0.59159 7 -2740.59 0.38767 0.59129 8 -2740.59 0.38765 0.59131 9 -2740.59 0.38765 0.59131 Log-likelihood ratio converged. Calculating the logLikelihood for the reduced model ... (variance component 1 is dropped from the model) Calculating prior values of variance components by EM-REML ... Updated prior values: 0.98692 logL: -2964.36686 Running AI-REML algorithm ... Iter. logL V(e) 1 -2964.37 0.98692 Log-likelihood ratio converged. Summary result of REML analysis: Source Variance SE V(G) 0.387651 0.023493 V(e) 0.591308 0.019178 Vp 0.978959 0.019038 V(G)/Vp 0.395983 0.020233 Sampling variance/covariance of the estimates of variance components: 5.519145e-04 -2.786317e-04 -2.786317e-04 3.677790e-04 Summary result of REML analysis has been saved in the file [trait1_with_relatives.hsq]. Analysis finished at 17:50:49 MDT on Mon Jun 01 2026 Overall computational time: 1 minute 14 sec.