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#!/usr/bin/env python3
"""
"""
import sys
from random import randint, random, seed
import matplotlib as mpl
mpl.use('pdf') # enable matplotpib over an ssh connection without X
import matplotlib.pyplot as plt
import numpy as np
import pandas as pd
from sqt import HelpfulArgumentParser
from sqt.io.fasta import IndexedFasta
__author__ = "Marcel Martin"
def get_argument_parser():
parser = HelpfulArgumentParser(description=__doc__)
add = parser.add_argument
add("--left", type=float, default=None)
add("--right", type=float, default=None)
add("--title", help="Plot title (default: Histogram of <INFILENAME>)")
add("--bins", type=int, default=40, help="number of bins (default: %(default)s")
add("infile", help="use '-' for standard input")
add("image", nargs='?', help="name of PDF or SVG file")
return parser
def main():
parser = get_argument_parser()
args = parser.parse_args()
if args.infile == '-':
path = sys.stdin.buffer
title = 'Histogram'
else:
path = args.infile
title = 'Histogram of ' + args.infile
if args.title:
title = args.title
data = pd.read_csv(path, dtype=float).values # delimiter=None is default
fig, ax = plt.subplots()
ax.set_title(title)
plt.hist(data, bins=args.bins, rwidth=0.8)
ax.set_xlim(left=args.left, right=args.right)
if args.image is not None:
plt.savefig(args.image)
else:
plt.show()
if __name__ == '__main__':
main()
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