diff options
Diffstat (limited to 'wqflask/maintenance/generate_kinship_from_bimbam.py')
| -rw-r--r-- | wqflask/maintenance/generate_kinship_from_bimbam.py | 6 |
1 files changed, 4 insertions, 2 deletions
diff --git a/wqflask/maintenance/generate_kinship_from_bimbam.py b/wqflask/maintenance/generate_kinship_from_bimbam.py index f322341d..b53f5dda 100644 --- a/wqflask/maintenance/generate_kinship_from_bimbam.py +++ b/wqflask/maintenance/generate_kinship_from_bimbam.py @@ -32,6 +32,8 @@ class GenerateKinshipMatrices(object): if not input_file.endswith(('geno', '.geno.gz')): continue group_name = ".".join(input_file.split('.')[:-1]) + if group_name == "HSNIH-Palmer": + continue geno_input_file = os.path.join(bimbam_dir, group_name + "_geno.txt") pheno_input_file = os.path.join(bimbam_dir, group_name + "_pheno.txt") convertob = GenerateKinshipMatrices(group_name, geno_input_file, pheno_input_file) @@ -52,8 +54,8 @@ class GenerateKinshipMatrices(object): if __name__=="__main__": - Geno_Directory = """/home/zas1024/genotype_files/genotype/""" - Bimbam_Directory = """/home/zas1024/genotype_files/genotype/bimbam/""" + Geno_Directory = """/export/local/home/zas1024/genotype_files/genotype/""" + Bimbam_Directory = """/export/local/home/zas1024/genotype_files/genotype/bimbam/""" GenerateKinshipMatrices.process_all(Geno_Directory, Bimbam_Directory) #./gemma -g /home/zas1024/genotype_files/genotype/bimbam/BXD_geno.txt -p /home/zas1024/genotype_files/genotype/bimbam/BXD_pheno.txt -gk 1 -o BXD
\ No newline at end of file |