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| author | Pjotr Prins | 2020-04-26 12:32:46 -0500 |
|---|---|---|
| committer | Pjotr Prins | 2020-04-26 12:32:46 -0500 |
| commit | 14d49450c47e8ef3b34bca9e759acd371319a854 (patch) | |
| tree | 3f45b7455ec114ebdd9fdd2f2c4a92c9eb3cf756 /wqflask/maintenance/generate_kinship_from_bimbam.py | |
| parent | 33e2e09d00881de9b07274bc52b58587e5135cab (diff) | |
| parent | 15d8e24da26cf6d42d1bdb8a9a189b9ec061d147 (diff) | |
| download | genenetwork2-14d49450c47e8ef3b34bca9e759acd371319a854.tar.gz | |
Merge master and testingmaster
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
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