diff options
| author | BonfaceKilz | 2021-04-30 12:16:51 +0300 |
|---|---|---|
| committer | BonfaceKilz | 2021-04-30 13:45:15 +0300 |
| commit | c7e661b8ff9f70955418fbc4527378904beb0cf4 (patch) | |
| tree | 7a164b42d46e15b6f2775a50137b412c8713e2f3 /wqflask/maintenance/convert_geno_to_bimbam.py | |
| parent | 385da724b63f57d0fb1bbe3476cea31ef837c081 (diff) | |
| download | genenetwork2-c7e661b8ff9f70955418fbc4527378904beb0cf4.tar.gz | |
autopep8: Fix E20-E27
Run:
python -m autopep8 --in-place --recrusive ./ --select\
E20,E211,E22,E224,E224,E225,E226,E227,E228,E231,E241,\
E242,E251,E252,E26,E265,E266,E27 -p 3
Diffstat (limited to 'wqflask/maintenance/convert_geno_to_bimbam.py')
| -rw-r--r-- | wqflask/maintenance/convert_geno_to_bimbam.py | 10 |
1 files changed, 5 insertions, 5 deletions
diff --git a/wqflask/maintenance/convert_geno_to_bimbam.py b/wqflask/maintenance/convert_geno_to_bimbam.py index 0853b3ac..dc01cbb3 100644 --- a/wqflask/maintenance/convert_geno_to_bimbam.py +++ b/wqflask/maintenance/convert_geno_to_bimbam.py @@ -103,9 +103,9 @@ class ConvertGenoFile: with open(self.output_files[2], "w") as snp_fh: for marker in self.markers: if self.mb_exists: - snp_fh.write(marker['name'] +", " + str(int(float(marker['Mb'])*1000000)) + ", " + marker['chr'] + "\n") + snp_fh.write(marker['name'] + ", " + str(int(float(marker['Mb']) * 1000000)) + ", " + marker['chr'] + "\n") else: - snp_fh.write(marker['name'] +", " + str(int(float(marker['cM'])*1000000)) + ", " + marker['chr'] + "\n") + snp_fh.write(marker['name'] + ", " + str(int(float(marker['cM']) * 1000000)) + ", " + marker['chr'] + "\n") def get_sample_list(self, row_contents): self.sample_list = [] @@ -178,12 +178,12 @@ class ConvertGenoFile: print(" Row is:", convertob.latest_row_value) break -if __name__=="__main__": +if __name__ == "__main__": Old_Geno_Directory = """/export/local/home/zas1024/gn2-zach/genotype_files/genotype""" New_Geno_Directory = """/export/local/home/zas1024/gn2-zach/genotype_files/genotype/bimbam""" #Input_File = """/home/zas1024/gene/genotype_files/genotypes/BXD.geno""" #Output_File = """/home/zas1024/gene/wqflask/wqflask/pylmm/data/bxd.snps""" #convertob = ConvertGenoFile("/home/zas1024/gene/genotype_files/genotypes/SRxSHRSPF2.geno", "/home/zas1024/gene/genotype_files/new_genotypes/SRxSHRSPF2.json") - #convertob.convert() + # convertob.convert() ConvertGenoFile.process_all(Old_Geno_Directory, New_Geno_Directory) - #ConvertGenoFiles(Geno_Directory) + # ConvertGenoFiles(Geno_Directory) |