Mercurial > repos > gianmarco_piccinno > project_rm

diff codon_usage.py @ 31:3cb2af2435d3 draft

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author gianmarco_piccinno
date Wed, 12 Dec 2018 08:48:22 -0500
parents e85a1feaaf38
children 6e6b1fd6eda1
line wrap: on
line diff
--- a/codon_usage.py	Wed Dec 12 08:23:56 2018 -0500
+++ b/codon_usage.py	Wed Dec 12 08:48:22 2018 -0500
@@ -9,7 +9,6 @@
 import sys
 import os
 import pandas as pd
-#from BCBio import GFF
 
 
 def read_input(data = "example.fna", type_ = "fasta"):
@@ -143,7 +142,7 @@
     seqs = read_input(data=args['input'], type_=args['type'])
     out = codon_usage(seqs, args['codonTable'])
 
-    with open(args['output'], "w") as outf:
+    with open(args['output']+".csv", "w") as outf:
         out["Table"].to_csv(outf, sep="\t", index_label=["AA", "Codon"])
 
     
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