Ben Jeffery benjeffery

I hereby claim:

I am benjeffery on github.
I am benjeffery (https://keybase.io/benjeffery) on keybase.
I have a public key whose fingerprint is 1C75 E073 EDB5 D3D0 69FB 1D7A 22D6 43C3 578A A838

To claim this, I am signing this object:

	id site node time derived_state parent metadata
	0 0 48 2.0800060772564484 1 -1
	1 0 48 2.0572024992858435 0 0
	2 0 31 1.5647409985500718 1 1
	3 0 31 1.0950830757849048 0 2
	4 0 23 0.46366628550498323 1 3
	5 0 23 0.3019074179902289 0 4
	6 0 7 0.0934323669836497 1 5
	7 0 7 0.04671618349182485 0 6
	8 0 5 0.0934323669836497 1 5

	/home/benj/projects/tskit/c/build/../tskit/convert.c:26:1: warning: #includes are not sorted properly [llvm-include-order]
	#include <stdio.h>
	^ ~~~~~~~~~
	<assert.h>
	/home/benj/projects/tskit/c/build/../tskit/convert.c:26:1: warning: #includes are not sorted properly [llvm-include-order]
	#include <stdio.h>
	^ ~~~~~~~~~
	<assert.h>
	/home/benj/projects/tskit/c/build/../tskit/core.c:26:1: warning: #includes are not sorted properly [llvm-include-order]
	#include <stdio.h>

	import itertools
	import sys
	from time import perf_counter
	from matplotlib import pyplot
	from scipy import stats
	import numpy as np
	import tqdm

	sys.path.append('/home/benj/projects/tskit/python')
	import tskit

	regions <--- THIS NEEDS POPULATING!
	id
	lat
	lng
	name
	description
	num_samples

	countries
	id

	accountsservice/xenial-updates,now 0.6.40-2ubuntu11.3 amd64 [installed]
	acl/xenial,now 2.2.52-3 amd64 [installed]
	acpi-support/xenial,now 0.142 amd64 [installed]
	acpid/xenial,now 1:2.0.26-1ubuntu2 amd64 [installed]
	add-apt-key/xenial,xenial,now 1.0-0.5 all [installed]
	adduser/xenial,xenial,now 3.113+nmu3ubuntu4 all [installed]
	adobe-flashplugin/now 1:20170214.1-0ubuntu0.16.04.1 amd64 [installed,upgradable to: 1:20170616.1-0ubuntu0.16.04.1]
	adwaita-icon-theme/sarah,sarah,now 3.18.0-2ubuntu3mint2 all [installed]
	adwaita-icon-theme-full/sarah,sarah,now 3.18.0-2ubuntu3mint2 all [installed]
	alsa-base/xenial,xenial,now 1.0.25+dfsg-0ubuntu5 all [installed]

	function chooseMode(jsProps, cssProps) {
	if (cssProps.length == 0 && jsProps.length == 0) // IE <10, other early browser, no method works there. In Opera CSS works though
	return bowser.opera ? 'css' : 'warning';
	if (cssProps.length == 0 && jsProps.length > 0) // IE >10 even EDGE... sigh
	return 'js';
	if (cssProps.length == 1 && cssProps[0] == 'optimiseSpeed' && jsProps.length == 0) //A few earlier browsers report this prop, but it only works for images
	return 'warning';
	if (_.includes(cssProps, '-webkit-optimize-contrast') \|\| _.includes(cssProps, '-moz-crisp-edges') \|\| _.includes(cssProps, 'crisp-edges') \|\| _.includes(cssProps, 'pixelated')) {
	if (!bowser.check({chrome: "41"})) //Earlier chromes only support css on IMG
	return 'js';

	import requests

	def dl(path, filename):
	try:
	r = requests.get(path, stream=True)
	if r.status_code == 200:
	with open(filename, 'wb') as f:
	for chunk in r:
	f.write(chunk)
	print "done", path