threads impute --help prints out the click help strings from __main__.py. These are sometimes wrong (e.g. they specify pgen instead of vcf) and sometimes incomplete (the --mut help string is copied from --target).
More generally, some of the help strings from __main__.py could use an overhaul and more detail, e.g. by printing default values
threads impute --helpprints out theclickhelp strings from__main__.py. These are sometimes wrong (e.g. they specifypgeninstead ofvcf) and sometimes incomplete (the--muthelp string is copied from--target).More generally, some of the help strings from
__main__.pycould use an overhaul and more detail, e.g. by printing default values