Skip to content
Snippets Groups Projects
Commit 883db9e9 authored by Hanna  JULIENNE's avatar Hanna JULIENNE
Browse files

added an essential logo when using RAISS with the command line

parent 3901cc4d
No related branches found
No related tags found
1 merge request!9Dev
......@@ -23,7 +23,7 @@ def launch_chromosome_imputation(args):
def add_chromosome_imputation_argument():
parser = argparse.ArgumentParser()
parser = argparse.ArgumentParser(description="raiss command launch imputation for one trait on one chromosome")
parser.add_argument('--chrom', required=True, help= "chromosome to impute to the chr\d+ format")
parser.add_argument('--gwas', required=True, help= "GWAS to impute to the consortia_trait format")
......@@ -41,7 +41,7 @@ def add_chromosome_imputation_argument():
parser.add_argument("--ld-type", help= "Ld can be supplied as plink command --ld-snp-list output files (see raiss.ld_matrix.launch_plink_ld to compute these data using plink) or as a couple of a scipy sparse matrix (.npz )and an .csv containing SNPs index", default="plink")
parser.add_argument('--ref-panel-prefix', help= "prefix for the reference panel files", default = "")
parser.add_argument('--ref-panel-suffix', help= "suffix for the reference panel files", default = ".bim")
parser.add_argument('--minimum-ld', help = "this parameter ensure that their is enough typed SNPs around the imputed to perform a high accuracy imputation", default = 4)
parser.add_argument('--minimum-ld', help = "this parameter ensure that their is enough typed SNPs around the imputed loci to perform a high accuracy imputation", default = 4)
parser.set_defaults(func=launch_chromosome_imputation)
return(parser)
......@@ -53,4 +53,16 @@ def main():
if __name__=="__main__":
print("", file=sys.stderr)
print(" ******* ******* ******* ******* *******", file=sys.stderr)
print(" ** ** ** ** *** ** **", file=sys.stderr)
print(" ** ** ** ** *** ** **", file=sys.stderr)
print(" ** ***** ** ** *** ****** ******", file=sys.stderr)
print(" ** ** *********** *** ** **", file=sys.stderr)
print(" ** ** ** ** *** ** **", file=sys.stderr)
print(" ** ** ** ** ******* ******* *******", file=sys.stderr)
print("", file=sys.stderr)
print("", file=sys.stderr)
main()
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Please register or to comment