Stelios Sfakianakis sgsfak

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Based on https://gist.github.com/dlozeve/ed59bba8bc8cb9b21e2af36cc9766938 :

## install deps outside conda env:
brew install boost expat cgal google-sparsehash cairomm

conda create -n graph
source activate graph

conda install -c conda-forge python boost scipy numpy expat cgal

	'''
	Non-parametric computation of entropy and mutual-information

	Adapted by G Varoquaux for code created by R Brette, itself
	from several papers (see in the code).

	These computations rely on nearest-neighbor statistics
	'''
	import numpy as np

	/* curl_multi_test.c

	Clemens Gruber, 2013
	<clemens.gruber@pqgruber.com>

	Code description:
	Requests 4 Web pages via the CURL multi interface
	and checks if the HTTP status code is 200.

	Update: Fixed! The check for !numfds was the problem.

	## gb_gpl17000.csv contains the Genbank ids of the cDNA EST transcripts, downloaded from
	## http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL17000
	## (the GB_ACC column)
	## So for each of these accession numbers we download the corresponding page from NCBI (EST database)
	## and search (grep) for the Entrez Gene id
	cat gb_gpl17000.csv \|
	parallel -j4 --tagstring '{}' "curl -s http://www.ncbi.nlm.nih.gov/nucest/{} \| fgrep '/sites/entrez?db=gene&cmd=retrieve&list_uids='" \|
	gawk '{print $1, gensub(/^.list_uids=([0-9]+).$/, "\\1", "g", $3)}' \|
	tee gb_gpl17000_eg_map.txt

	#!/bin/sh

	wget ftp://ftp.ncbi.nih.gov/repository/UniGene/Homo_sapiens/Hs.data.gz
	gunzip Hs.data.gz

	<Hs.data awk -v OFS=',' 'BEGIN { print "unigene_id", "gene_id", "symbol", "gb_acc"}
	/^ID /{ug=$2}
	/^GENE_ID /{eg=$2}
	/^GENE /{s=$2}
	/^SEQUENCE /{

	import rx.Observable;
	import rx.Observer;
	import rx.observables.SyncOnSubscribe;

	import java.io.IOException;
	import java.nio.file.Files;
	import java.nio.file.Path;
	import java.nio.file.Paths;
	import java.util.Iterator;
	import java.util.stream.Stream;

	if (!!root.EventSource) {

	/**
	* This method wraps an EventSource as an observable sequence.
	* @param {String} url The url of the server-side script.
	* @param {Observer} [openObserver] An optional observer for the 'open' event for the server side event.
	* @returns {Observable} An observable sequence which represents the data from a server-side event.
	*/
	dom.fromEventSource = function (url, openObserver) {
	return new AnonymousObservable(function (observer) {

	server {

	# Listen on internal ports only. Do not expose this server directly.
	listen 127.0.0.1:80;
	listen 10.0.0.1:80; # Secure internal IP

	# Hosts
	server_name www.wieni.be;

	# Root