| Previous changeset 30:e12061ce9601 (2018-12-12) Next changeset 32:02503b9c8c39 (2018-12-12) |
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modified:
codon_usage.py codon_usage.xml |
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| diff -r e12061ce9601 -r 3cb2af2435d3 codon_usage.py --- a/codon_usage.py Wed Dec 12 08:23:56 2018 -0500 +++ b/codon_usage.py Wed Dec 12 08:48:22 2018 -0500 |
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| @@ -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"]) \ No newline at end of file |
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| diff -r e12061ce9601 -r 3cb2af2435d3 codon_usage.xml --- a/codon_usage.xml Wed Dec 12 08:23:56 2018 -0500 +++ b/codon_usage.xml Wed Dec 12 08:48:22 2018 -0500 |
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| @@ -5,6 +5,7 @@ <requirement type="package" version="2.7.15">python</requirement> <requirement type="package" version="1.72">biopython</requirement> <requirement type="package" version="0.23.4">pandas</requirement> + <requirement type="package" version="1.15.3">numpy</requirement> </requirements> <command> |