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path: root/wqflask/maintenance/convert_dryad_to_bimbam.py
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-rw-r--r--wqflask/maintenance/convert_dryad_to_bimbam.py11
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)