Just came across this issue: in format_sumstats when I set path to somewhere that can't actually be created (even with recursion), the entire pipeline will run only to fail at the write step at the very end.
e.g.
"/rds/general/typo/neurogenomics-lab/live/GWAS_sumstats/OpenGWAS"
Just came across this issue: in
format_sumstatswhen I setpathto somewhere that can't actually be created (even with recursion), the entire pipeline will run only to fail at the write step at the very end.e.g. "/rds/general/typo/neurogenomics-lab/live/GWAS_sumstats/OpenGWAS"
Instead, I'm adding a check to
check_save_paththat ensures the directory does indeed exist: https://github.com/neurogenomics/MungeSumstats/blob/eb8d4581d7622c3b7f20bd68f95b9d69d0578b2c/R/check_save_path.R#L126