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#!/usr/bin/env python
# Note, updated version of 
# https://github.com/ipython/ipython-in-depth/blob/master/tools/nbmerge.py
"""
usage:

python nbmerge.py A.ipynb B.ipynb C.ipynb > merged.ipynb
"""

import io

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The Best of the Best Practices (BOBP) Guide for Python

A "Best of the Best Practices" (BOBP) guide to developing in Python.

In General

Values

• "Build tools for others that you want to be built for you." - Kenneth Reitz
• "Simplicity is alway better than functionality." - Pieter Hintjens

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#!/usr/bin/env python 
__author__  = "github.com/ruxi"
__license__ = "MIT"
import requests 
import tqdm     # progress bar
import os.path
def download_file(url, filename=False, verbose = False):
    """
    Download file with progressbar
    

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# Rename all *.fasta to *.sra
for f in *.fasta; do 
mv -- "$f" "${f%.fasta}.sra"
done

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#!/usr/bin/env python 
from __future__ import print_function
__author__ = 'github.com/ruxi'
__license__= 'MIT'
import sys
import os.path
import subprocess
def runbash(cmd, cwd=".", shell=True, logname="runbash.log", ioprint=True):
    """
    cmd: bash command to run. example: 'ls -l'

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from contextlib import contextmanager
import sys, os

@contextmanager
def suppress_stdout():
    with open(os.devnull, "w") as devnull:
        old_stdout = sys.stdout
        sys.stdout = devnull
        try:  
            yield

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from contextlib import contextmanager
import sys, os

@contextmanager
def suppress_stdout():
    """
    source: https://gist.github.com/djsmith42/3956189
    usage:
        print "You can see this"
        with suppress_stdout():