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"""Translate a Tandem Repeat Finder file into a bed file containing
annotated repeat intervals.

> This file is a text file which contains the same information, in the same
  order, as the summary table file, plus consensus pattern and repeat sequences
  http://tandem.bu.edu/trf/trf.definitions.html#table
"""

from __future__ import division

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def xor(fields, group_name):
    """Creates an Exclusive OR (XOR) logical gate voluptuous schema.

    see https://github.com/alecthomas/voluptuous/issues/126

    :param fields: fields comprising the exclusive group.
    :type fields: Dict[str, Schema]
    :param group_name: exclusive group identifier.
    :type group_name: str
    :returns: XOR gated voluptuous schema.

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import argparse
import functools
import inspect
import json
import sys


def recipe_inputs(schema, kw='inputs'):
    def decorator(recipe_func):
        @functools.wraps(recipe_func)

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# 0 is too far from ` ;)
set -g base-index 1

# Automatically set window title
set-window-option -g automatic-rename on
set-option -g set-titles on

#set -g default-terminal screen-256color
set -g status-keys vi
set -g history-limit 10000

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Local (OS X) Side

~/Library/LaunchAgents/pbcopy.plist

<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE plist PUBLIC "-//Apple Computer//DTD PLIST 1.0//EN" "http://www.apple.com/DTDs/PropertyList-1.0.dtd">
<plist version="1.0">
<dict>
     <key>Label</key>
     <string>localhost.pbcopy</string>

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#!/usr/bin/env python

# adjust these params

KNOBS = ['phase', 'flange', 'delay']
ACTIONS = [('up', 45), ('down', 45), ('..you decide..', 10)]
DELAY_MIN = 1  # seconds
DELAY_MAX = 3  # seconds

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from functools import wraps
from timeit import default_timer
import gevent
from gevent.queue import Queue

def gevent_throttle(calls_per_sec=0):
    """Decorates a Greenlet function for throttling."""
    interval = 1. / calls_per_sec if calls_per_sec else 0
    def decorate(func):
        blocked = [False] # has to be a list to not get localised inside the while loop

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#!/usr/bin/env sh

##
# This is script with usefull tips taken from:
#   https://github.com/mathiasbynens/dotfiles/blob/master/.osx
#
# install it:
#   curl -sL https://raw.github.com/gist/2108403/hack.sh | sh
#

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import base64
import os
from tastypie.fields import FileField
from django.core.files.uploadedfile import SimpleUploadedFile

class Base64FileField(FileField):
    """
    A django-tastypie field for handling file-uploads through raw post data.
    It uses base64 for en-/decoding the contents of the file.
    Usage:

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from dateutil import parser, rrule

class BaseArgConverter(object):

    def convert_value(self, value):
        """convert either a single value or sequence"""
        sequence = value.split(',')
        if len(sequence) > 1:
            return map(self._convert_value, sequence)
        return self._convert_value(value)