Benjamin Irving benjaminirving

I made a few optimizations to the cython code. The timings on my machine are:

from sequences import P53_HUMAN, P53_MOUSE
from alignment import align as py_align
from align_numpy import align as cy_align
from align_numpy2 import align as cy_align2
 
%timeit py_align(P53_HUMAN, P53_MOUSE)
1 loops, best of 3: 442 ms per loop

if you are using linux, unix, os x:

pip install -U setuptools
pip install -U pip

pip install numpy
pip install scipy
pip install matplotlib
#pip install PySide

This is a quick script to convert notes from Tomboy to Evernote.

Usage

pip install -r requirements.txt
mkdir export/
python tomboy-export.py <tomboy-dir>

	"""
	Minimal character-level Vanilla RNN model. Written by Andrej Karpathy (@karpathy)
	BSD License
	"""
	import numpy as np

	# data I/O
	data = open('input.txt', 'r').read() # should be simple plain text file
	chars = list(set(data))
	data_size, vocab_size = len(data), len(chars)

	# Alec Radford, Indico, Kyle Kastner
	# License: MIT
	"""
	Convolutional VAE in a single file.
	Bringing in code from IndicoDataSolutions and Alec Radford (NewMu)
	Additionally converted to use default conv2d interface instead of explicit cuDNN
	"""
	import theano
	import theano.tensor as T
	from theano.compat.python2x import OrderedDict

	import theano
	import theano.tensor as T
	from theano.sandbox.rng_mrg import MRG_RandomStreams as RandomStreams
	from theano.tensor.signal.downsample import max_pool_2d
	from theano.tensor.extra_ops import repeat
	from theano.sandbox.cuda.dnn import dnn_conv

	from time import time
	import numpy as np
	from matplotlib import pyplot as plt

	# Script to clean (and sort) the bibfile exported by mendeley
	# It is then apt for versioning
	# Author: Carles F. Julià <carles.fernandez(AT)upf.edu>

	# You will need bibtexparser package:
	# $ pip install bibtexparser

	# usage: cleanbib.py library.bib
	# WARNING: it overwrites the original file

	/*
	Example of how to write binary stuff in C++

	Illustrates some of the various quirks/annoyances
	*/

	#include <iostream>
	#include <fstream>
	#include <string>
	#include <vector>

	from PyQt4 import QtGui, QtCore
	from FingerTabs import FingerTabWidget

	import sys

	app = QtGui.QApplication(sys.argv)
	tabs = QtGui.QTabWidget()
	tabs.setTabBar(FingerTabBarWidget(width=100,height=25))
	digits = ['Thumb','Pointer','Rude','Ring','Pinky']
	for i,d in enumerate(digits):

	# look and feel
	caption always "%{= bb}%{+b w}%h %=%{=b rw} %l %{= db} ${USER}@%H %{= dg}%c"
	hardstatus alwayslastline "%-Lw%{= BW}%50>%n%f* %t%{-}%+Lw%<"

	# skip the startup message
	startup_message off

	# go to home dir
	chdir