Entering edit mode
2.5 years ago
Whirlingdaf
▴
60
Hi,
I am attempting run ADMIXTURE and continue receiving a (new to me) error that I cannot seem to figure out:
Cross-validation will be performed. Folds=5.
Random seed: 43
Point estimation method: Block relaxation algorithm
Convergence acceleration algorithm: QuasiNewton, 3 secant conditions
Point estimation will terminate when objective function delta < 0.0001
Estimation of standard errors disabled; will compute point estimates only.
zsh: abort ./admixture --cv pop.admix.bed 2
I have tried a couple of different vcf files to see if the file might be the issue, but it does not appear to be the specific file. I have also stripped my admixture command down to the bare essentials.
And, in case it is useful, the plink command I used to prep the files is:
./plink --vcf hapc.snps2.vcf.gz --make-bed --out pop.admix --allow-extra-chr --chr-set 38
I would appreciate any thoughts!