image/svg+xml
{ bionix, speed ? "normal", max-genotypes ? 0, targets ? [] }:
{
options.octopus.call = {
speed = mkOption {
type = types.enum [ "normal" "fast" "very-fast" ];
default = "normal";
};
max-genotypes = mkOption {
type = types.int;
default = 0;
description = "Maximum number of candidate genotypes. If zero then flag is not passed to octopus."
};
targets = mkOption {
type = types.either (types.listOf types.str) types.path;
default = [];
description = "either a list of genomic regions to call or a file containing a list of genomic regions to call";
example = ''
targets = [ "chr1" "chr2:0-1,000" ];
'';
};
};
...