******************************************************************* * Genome-wide Complex Trait Analysis (GCTA) * version 1.92.0 beta2 * (C) 2010-2018, The University of Queensland * Please report bugs to: Jian Yang ******************************************************************* Analysis started at 14:13:04 UTC on Tue Mar 05 2019. Hostname: workshop-11 Accepted options: --bfile mydata --make-grm-bin --out mydata_allSNPs Note: the program will be running on 4 threads. Reading PLINK FAM file from [mydata.fam]. 6000 individuals to be included from [mydata.fam]. Reading PLINK BIM file from [mydata.bim]. 12000 SNPs to be included from [mydata.bim]. Reading PLINK BED file from [mydata.bed] in SNP-major format ... Genotype data for 6000 individuals and 12000 SNPs to be included from [mydata.bed]. Calculating allele frequencies ... Recoding genotypes (individual major mode) ... Calculating the genetic relationship matrix (GRM) ... (Note: default speed-optimized mode, may use huge RAM) Summary of the GRM: Mean of diagonals = 1.00012 Variance of diagonals = 0.000419336 Mean of off-diagonals = -0.000166715 Variance of off-diagonals = 0.000166455 GRM of 6000 individuals has been saved in the file [mydata_allSNPs.grm.bin] (in binary format). Number of SNPs to calcuate the genetic relationship between each pair of individuals has been saved in the file [mydata_allSNPs.grm.N.bin] (in binary format). IDs for the GRM file [mydata_allSNPs.grm.bin] have been saved in the file [mydata_allSNPs.grm.id]. Analysis finished at 14:13:59 UTC on Tue Mar 05 2019 Computational time: 54.473576 second(s).