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#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# Plot post-refinement results
#
# Copyright © 2017-2018 Deutsches Elektronen-Synchrotron DESY,
# a research centre of the Helmholtz Association.
#
# Author:
# 2017-2018 Thomas White <taw@physics.org>
#
import sys
import matplotlib
import numpy as np
from matplotlib import pyplot as plt
from operator import truediv, itemgetter
from matplotlib.widgets import RadioButtons,SpanSelector,Button
crystal=0
resmin=0
resmax=100e9
inum="0"
first=True
def update_graph():
global inum, resmin, resmax, first
# Update pobs/pcalc scatter plot
xlim = pgraphE.get_xlim()
ylim = pgraphE.get_ylim()
pgraphE.cla()
pgraphE.scatter([x[0] for x in pgraph if x[2]==inum if x[3]<resmax if x[3]>resmin],
[x[1] for x in pgraph if x[2]==inum if x[3]<resmax if x[3]>resmin], marker="+")
pgraphE.grid(b=True, which='major', color='k', linestyle='--')
if not first:
pgraphE.set_xlim(xlim)
pgraphE.set_ylim(ylim)
pgraphE.set_xlabel("pcalc")
pgraphE.set_ylabel("pobs")
pgraphE.set_title("Observed and calculated partialities")
# Update spectrum plot
pobsE.set_data([x[0] for x in specgraph if x[3]==inum if x[4]<resmax if x[4]>resmin],
[x[2] for x in specgraph if x[3]==inum if x[4]<resmax if x[4]>resmin])
pcalcE.set_data([x[0] for x in specgraph if x[3]==inum if x[4]<resmax if x[4]>resmin],
[x[1] for x in specgraph if x[3]==inum if x[4]<resmax if x[4]>resmin])
specgraphE.set_title("Spectrum plot for crystal %i" % crystal)
first = False
plt.draw()
def iteration_click(label):
global inum
inum = label.split(" ")[1].split("\n")[0]
update_graph()
def resolutionchange(rmin,rmax):
global resmin,resmax
resmin = rmin
resmax = rmax
update_graph()
def read_spectrum(filename):
specgraph = []
try:
fh = open(filename, 'r')
except IOError:
print("Failed to read "+filename)
raise IOError
fline = fh.readline()
fline = fh.readline() # Ignore header (two lines)
while True:
fline = fh.readline()
if not fline:
break
kval = float(fline.split()[0])
res = float(fline.split()[1])
pcalc = float(fline.split()[2])
pobs = float(fline.split()[3])
inum = fline.split()[4]
specgraph.append([kval,pcalc,pobs,inum,res])
return sorted(specgraph, key=itemgetter(0))
def next_click(w):
global specgraph, crystal
crystal += 20
specgraph = read_spectrum("%s/specgraph-crystal%i.dat" % (folder,crystal))
update_graph()
def prev_click(w):
global specgraph, crystal
crystal -= 20
specgraph = read_spectrum("%s/specgraph-crystal%i.dat" % (folder,crystal))
update_graph()
def set_sensible_axes(w):
pgraphE.set_xlim([-0.1,1.1])
pgraphE.set_ylim([-0.2,2.0])
specgraphE.set_ylim([-5.0,5.0])
plt.draw()
# Read the pgraph file
pgraph = []
if len(sys.argv) == 2:
folder = sys.argv[1]
else:
folder = "pr-logs"
print("Using folder '%s'" % folder)
try:
fh = open("%s/pgraph.dat" % folder, 'r')
except IOError:
print("Failed to read "+filename)
raise IOError
fline = fh.readline() # Ignore header
while True:
fline = fh.readline()
if not fline:
break
res = float(fline.split()[4])
Ipart = float(fline.split()[5])
pc = float(fline.split()[6])
po = float(fline.split()[7])
inum = fline.split()[8]
pgraph.append([pc,po,inum,res,Ipart])
# Read the spectrum file
specgraph = read_spectrum("%s/specgraph-crystal%i.dat" % (folder,crystal))
fig = plt.figure(figsize=(15,6))
fig.subplots_adjust(left=0.05, right=0.65)
# pobs/pcalc
pgraphE = fig.add_subplot(121)
# Spectrum
specgraphE = fig.add_subplot(122)
pobsE = specgraphE.plot([0,1],[0,1],label="pobs")[0]
pcalcE = specgraphE.plot([0,1],[0,1],label="pcalc")[0]
specgraphE.set_xlabel("khalf / m^-1")
specgraphE.set_ylabel("Partiality")
specgraphE.grid(b=True, which='major', color='k', linestyle='--')
specgraphE.legend()
# Iteration selector
ax = plt.axes([0.75, 0.50, 0.2, 0.40], facecolor="lightgoldenrodyellow")
iterations = sorted(set(["Iteration "+str(x[2]) for x in pgraph]))
if iterations[0] != "Iteration 0":
print("Whoops, couldn't find iteration 0!")
sys.exit(1)
iterations[0] = "Iteration 0\n(initial scaling only)"
if iterations[len(iterations)-1] != "Iteration F":
print("Whoops, couldn't find final iteration!")
else:
iterations[len(iterations)-1] = "Iteration F\n(after final merge)"
iteration = RadioButtons(ax, iterations)
iteration.on_clicked(iteration_click)
iteration.set_active(len(iterations)-1)
# Resolution selector
ax = plt.axes([0.75, 0.25, 0.2, 0.15], facecolor="lightgoldenrodyellow")
ax.hist([x[3] for x in pgraph],weights=[x[4] for x in pgraph],bins=100)
ax.set_xlabel("Resolution / m^-1")
ax.set_ylabel("Frequency")
ax.set_title("Resolution selector")
resolution = SpanSelector(ax, resolutionchange, 'horizontal', span_stays=True, useblit=True)
# Crystal switcher
ax = plt.axes([0.75, 0.10, 0.09, 0.05])
crystal_prev = Button(ax, "Previous crystal")
crystal_prev.on_clicked(prev_click)
ax = plt.axes([0.86, 0.10, 0.09, 0.05])
crystal_next = Button(ax, "Next crystal")
crystal_next.on_clicked(next_click)
# Set sensible axes
ax = plt.axes([0.75, 0.01, 0.09, 0.05])
sensible_axes = Button(ax, "Set sensible axes")
sensible_axes.on_clicked(set_sensible_axes)
specgraphE.relim()
specgraphE.autoscale_view(True,True,True)
plt.show()
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