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| author | Arthur Centeno | 2021-06-15 15:33:59 +0000 |
|---|---|---|
| committer | Arthur Centeno | 2021-06-15 15:33:59 +0000 |
| commit | c1a6ca69f7c48d99b6c5d62e56a445583fd4c08b (patch) | |
| tree | f98fccc44829e3f52e585d6b41a1942aa52bd8b7 /wqflask/maintenance/convert_dryad_to_bimbam.py | |
| parent | 7e49c006af9c4f7453c3578a7d4f1fc4d7bdf3ed (diff) | |
| parent | 9e9e0e4d440383f617542e810a1115833eafd7bf (diff) | |
| download | genenetwork2-c1a6ca69f7c48d99b6c5d62e56a445583fd4c08b.tar.gz | |
Merge branch 'testing' of github.com:genenetwork/genenetwork2 into acenteno
Diffstat (limited to 'wqflask/maintenance/convert_dryad_to_bimbam.py')
| -rw-r--r-- | wqflask/maintenance/convert_dryad_to_bimbam.py | 11 |
1 files changed, 7 insertions, 4 deletions
diff --git a/wqflask/maintenance/convert_dryad_to_bimbam.py b/wqflask/maintenance/convert_dryad_to_bimbam.py index 12ce35e9..18fbb8a1 100644 --- a/wqflask/maintenance/convert_dryad_to_bimbam.py +++ b/wqflask/maintenance/convert_dryad_to_bimbam.py @@ -41,7 +41,7 @@ def read_dryad_file(filename): return geno_rows - #for i, marker in enumerate(marker_list): + # for i, marker in enumerate(marker_list): # this_row = [] # this_row.append(marker) # this_row.append("X") @@ -52,18 +52,21 @@ def read_dryad_file(filename): # this_row.append(line.split(" ")[i+2]) # print("row: " + str(i)) # geno_rows.append(this_row) - # - #return geno_rows + # + # return geno_rows + def write_bimbam_files(geno_rows): with open('/home/zas1024/cfw_data/CFW_geno.txt', 'w') as geno_fh: for row in geno_rows: geno_fh.write(", ".join(row) + "\n") + def convert_dryad_to_bimbam(filename): geno_file_rows = read_dryad_file(filename) write_bimbam_files(geno_file_rows) -if __name__=="__main__": + +if __name__ == "__main__": input_filename = "/home/zas1024/cfw_data/" + sys.argv[1] + ".txt" convert_dryad_to_bimbam(input_filename) |