Open Shicheng-Guo opened 3 years ago
We'll take a closer look to identify the cause of this.
Cheers, Joelle
File size should be one of the reasons since I tried to use head -n 20000 *bim
to repeat the same command and the result are quite good. However, when I used full plink genotype data, the last several blocks will show an error.
Here is an interesting unexpected thing. You can find REGENIE generated extra 4 lines for chr4 (UKB imputed array), rs530960215 is the last SNPs, but I don't know why REGENIE have extra 4 line result (9 columns)
(base) [sguo2@login01 gwas]$ regenie |============================| | REGENIE v2.0.2 | |============================|
Copyright (c) 2020 Joelle Mbatchou and Jonathan Marchini. Distributed under the MIT License.
ERROR: You must provide an output prefix using '--out' For more information, use option '--help' or visit the website: https://rgcgithub.github.io/regenie/