Tanya Malygina latticetower

Following table contains packages I worked on by July, 16, 2015 (starting from June, 15):

Following table contains packages I worked on by June, 15, 2015:

Package	What I did
Concavity	1 test + 1 serious bug fixed
Conservation-code	2 tests + 1 small patch
Dssp	1 test + example files
Profbval	1 test
Tm-align	1 test (for both TMalign and TMscore) + example files
Predictnls	1 test

	package foo.common.algorithms.geometry

	import foo.common.structures.geometry.{
	Simplex,
	GeometryVector,
	InfiniteVector, PointPosition
	}

	object ManifoldUtils {

	"""Alternative aminoacid to SMILES convertor

	If you want to check how it works, simply run
	```
	python aa_convertor.py
	```
	When called this way, module expects that rdkit is installed, however simple
	module import and function call shouldn't fail when it is not.

	This module should be compatible with python 2 & 3.

	from prody import *

	pdb = parsePDB("1QS3")

	def sliding_window(aminoacids, width=3):
	"""
	iterates over residues in given chain, returns iterator
	with arrays containing each width elements (as a sliding window)
	"""
	index = 1 # prody starts iteration from 1, or at least it seems


	type C0{T}
	super :: T#base obj
	x :: Int#subtype fields
	function C0(x::Int, y::Int)
	new(T(x), y) # вызвали конструктор базового типа, если надо, ну и добавили сложную логику
	end
	end
	function convert{T}(::Type{C0{T}}, x::Int, y::Int)
	C0{T}(x, y)

	#!/bin/sh
	# autopkgtest check: build and run pymol scripts from directory and subdirectories
	# ignores errors appearing inside PYMOL command line, checks if message
	# "PyMOL: normal program termination." present in pymol's output.
	# Author: Tatiana Malygina <merlettaia@gmail.com>

	set -e

	testsdir="$(cd "$1" && pwd)"
	echo "work with $testsdir"

	# -- mode: ruby --
	# vi: set ft=ruby :

	# All Vagrant configuration is done below. The "2" in Vagrant.configure
	# configures the configuration version (we support older styles for
	# backwards compatibility). Please don't change it unless you know what
	# you're doing.
	Vagrant.configure(2) do \|config\|
	# The most common configuration options are documented and commented below.
	# For a complete reference, please see the online documentation at