earlier filtering

Snakefile

@@ -82,8 +82,6 @@ rule vcf_to_dosages:
         printf "done.\n\r\n\r"
         """
 
-bcftools +fill-tags -e 'MAF[0]<0.01 | INFO<0.8 | TYPE!="snp" | N_ALT!=1' CENTER_TBI_imputed_3695_1K_MAC1_freeze_190829_chr1.vcf.gz > chr1.vcf
-
 # extract sample file for PrediXcan
 rule generate_samples_file:
     input:

scripts/slurm-snakemake.sh

-mkdir logs
+mkdir -p logs
+rm -f nohup.out
+touch nohup.out 
 nohup snakemake $1 \
     --jobs 99 \
     --use-singularity \