PLINK v1.90p 64-bit (2 Dec 2018) Options in effect: --bfile ../popgen_nopcrdup/plink/lwf.pop --chr-set 40 no-xy --extract lwf.pcadapt.thinned.snps --make-bed --out lwf.pcadapt.allpops.thinned Hostname: coreV2-22-013.cm.cluster Working directory: /scratch-lustre/wlarson/yue/LWF/pcadapt Start time: Wed Apr 6 02:07:47 2022 Random number seed: 1649225267 128876 MB RAM detected; reserving 64438 MB for main workspace. 197588 variants loaded from .bim file. 829 samples (0 males, 0 females, 829 ambiguous) loaded from .fam. Ambiguous sex IDs written to lwf.pcadapt.allpops.thinned.nosex . --extract: 129939 variants remaining. Using 1 thread (no multithreaded calculations invoked). Before main variant filters, 829 founders and 0 nonfounders present. Calculating allele frequencies... done. Total genotyping rate is 0.881772. 129939 variants and 829 samples pass filters and QC. Note: No phenotypes present. --make-bed to lwf.pcadapt.allpops.thinned.bed + lwf.pcadapt.allpops.thinned.bim + lwf.pcadapt.allpops.thinned.fam ... done. End time: Wed Apr 6 02:07:48 2022