PLINK v1.90b1g 64-bit (10 Jun 2014) 5 arguments: --bfile fastphase.test2.chr19.input.region.0 --recode fastphase-1chr fastphase.test2.chr19.input.region.0.fp Hostname: dense Working directory: /data/outbredmice/refs/mm10 Start time: Fri Jun 5 16:05:50 2015 Error: Invalid --recode parameter 'fastphase.test2.chr19.input.region.0.fp'. (Did you forget '--out'?) For more information, try 'plink --help [flag name]' or 'plink --help | more'. End time: Fri Jun 5 16:05:50 2015