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#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# Project: Azimuthal integration
# https://github.com/silx-kit/pyFAI
#
# Copyright (C) 2013-2018 European Synchrotron Radiation Facility, Grenoble, France
#
# Principal author: Jérôme Kieffer (Jerome.Kieffer@ESRF.eu)
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
# copies of the Software, and to permit persons to whom the Software is
# furnished to do so, subject to the following conditions:
# .
# The above copyright notice and this permission notice shall be included in
# all copies or substantial portions of the Software.
# .
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
# THE SOFTWARE.
"""pyFAI-integrate
A graphical tool for performing azimuthal integration on series of files.
"""
__author__ = "Jérôme Kieffer"
__contact__ = "Jerome.Kieffer@ESRF.eu"
__license__ = "MIT"
__copyright__ = "European Synchrotron Radiation Facility, Grenoble, France"
__date__ = "16/10/2020"
__status__ = "development"
import logging
import json
import os.path as op
import time
logger = logging.getLogger(__name__)
from silx.gui import qt
from silx.gui import icons
from silx.gui import colors
from .. import worker as worker_mdl
from .widgets.WorkerConfigurator import WorkerConfigurator
from ..io import integration_config
from .utils import projecturl
from ..utils import get_ui_file
from ..app import integrate
from .. import containers
from pyFAI.gui.utils.eventutils import QtProxifier
class _ThreadSafeIntegrationProcess(QtProxifier):
def is_interruption_requested(self):
# NOTE: Not thread safe, but it usually do not call anything but only
# returns a boolean
result = self._target().is_interruption_requested()
return result
def request_interruption(self):
raise RuntimeError("Not supposed to be called")
class IntegrationProcess(qt.QDialog, integrate.IntegrationObserver):
def __init__(self, parent=None):
qt.QDialog.__init__(self, parent=parent)
filename = get_ui_file("integration-process.ui")
qt.loadUi(filename, self)
integrate.IntegrationObserver.__init__(self)
self.setWindowTitle("Processing...")
self.__undisplayedResult = None
self._displayResult.toggled.connect(self.__displayResultUpdated)
self._plot.setDataMargins(0.05, 0.05, 0.05, 0.05)
self.__firstPlot = True
self.__lastDisplay = None
self._progressBar.setFormat("Preprocessing...")
self._cancelButton.clicked.connect(self.__interruptionRequested)
def __interruptionRequested(self):
self.setEnabled(False)
self.request_interruption()
def __resultReceived(self, result):
isFiltered = not self._displayResult.isChecked()
now = time.perf_counter()
if self.__lastDisplay is not None:
# Display a new result every 500ms, no more
if now - self.__lastDisplay < 0.5:
isFiltered = True
if not isFiltered:
self.__undisplayedResult = None
self.__lastDisplay = now
self.__displayResult(result, resetZoom=self.__firstPlot)
else:
self.__undisplayedResult = result
self.__firstPlot = False
def __displayResultUpdated(self):
self._plot.setVisible(self._displayResult.isChecked())
if self._displayResult.isChecked():
if self.__undisplayedResult is not None:
result = self.__undisplayedResult
self.__undisplayedResult = None
self.__displayResult(result, True)
self.adjustSize()
def __displayResult(self, result, resetZoom=False):
self._plot.clear()
if isinstance(result, containers.Integrate1dResult):
self._plot.setGraphXLabel("Radial")
self._plot.setGraphYLabel("Intensity")
self._plot.addHistogram(
legend="result1d",
align="center",
edges=result.radial,
color="blue",
histogram=result.intensity,
resetzoom=False)
elif isinstance(result, containers.Integrate2dResult):
def computeLocation(result):
# Assume that axes are linear
if result.intensity.shape[1] > 1:
scaleX = (result.radial[-1] - result.radial[0]) / (result.intensity.shape[1] - 1)
else:
scaleX = 1.0
if result.intensity.shape[0] > 1:
scaleY = (result.azimuthal[-1] - result.azimuthal[0]) / (result.intensity.shape[0] - 1)
else:
scaleY = 1.0
halfPixel = 0.5 * scaleX, 0.5 * scaleY
origin = (result.radial[0] - halfPixel[0], result.azimuthal[0] - halfPixel[1])
return origin, (scaleX, scaleY)
self._plot.setGraphXLabel("Radial")
self._plot.setGraphYLabel("Azimuthal")
origin, scale = computeLocation(result)
colormap = colors.Colormap("inferno", normalization=colors.Colormap.LOGARITHM)
self._plot.addImage(
legend="result2d",
data=result.intensity,
origin=origin,
scale=scale,
colormap=colormap,
resetzoom=False)
else:
logger.error("Unsupported result type %s", type(result))
if resetZoom:
self._plot.resetZoom()
def worker_initialized(self, worker):
"""
Called when the worker is initialized
:param int data_count: Number of data to integrate
"""
pass
def processing_started(self, data_count):
"""
Called before starting the full processing.
:param int data_count: Number of data to integrate
"""
self._progressBar.setRange(0, data_count + 1)
def processing_data(self, data_info, approximate_count=None):
"""
Start processing the data `data_info`
:param DataInfo data_info: Contains data and metadata from the data
to integrate
:param int approximate_count: If set, the amount of total data to
process have changed
"""
if approximate_count is not None:
self._progressBar.setRange(0, approximate_count + 1)
self._progressBar.setValue(data_info.data_id)
if data_info.source_filename is None:
filename = ""
elif len(data_info.source_filename) > 20:
filename = op.basename(data_info.source_filename)
else:
filename = data_info.source_filename
self._progressBar.setFormat("%s (%%p%%)..." % filename)
def data_result(self, data_info, result):
self.__resultReceived(result)
def processing_interrupted(self):
self.__was_interrupted = True
def processing_succeeded(self):
self.__was_interrupted = False
def processing_finished(self):
"""Called when the full processing is finisehd."""
self._progressBar.setValue(self._progressBar.maximum())
self.__lastResult = None
if self.__was_interrupted:
self.reject()
else:
self.accept()
def createObserver(self, qtSafe=True):
"""Returns a processing observer connected to this widget.
:param bool qtSafe: If True the returned observer can be called from
any thread. Else it have to be called from the main Qt thread.
:rtype: integrate.IntegrationObserver
"""
if qtSafe:
return _ThreadSafeIntegrationProcess(self)
else:
self
class IntegrationDialog(qt.QWidget):
"""Dialog to configure an azimuthal integration.
"""
batchProcessRequested = qt.Signal()
def __init__(self, input_data=None, output_path=None, json_file=".azimint.json", context=None):
qt.QWidget.__init__(self)
filename = get_ui_file("integration-dialog.ui")
qt.loadUi(filename, self)
pyfaiIcon = icons.getQIcon("pyfai:gui/images/icon")
self.setWindowIcon(pyfaiIcon)
self.__context = context
if context is not None:
context.restoreWindowLocationSettings("main-window", self)
self.__workerConfigurator = WorkerConfigurator(self._holder)
self.__content = qt.QWidget(self)
layout = qt.QVBoxLayout(self.__content)
layout.addWidget(self.__workerConfigurator)
self._holder.setWidget(self.__content)
self._holder.minimumSizeHint = self.__minimumScrollbarSizeHint
size = self.__content.minimumSizeHint()
self._holder.setMaximumHeight(size.height() + 2)
size = self.minimumSizeHint() - self._holder.minimumSizeHint() + size
self.setMaximumHeight(size.height() + 2)
self.input_data = input_data
self.output_path = output_path
self.json_file = json_file
self.batch_processing.clicked.connect(self.__fireBatchProcess)
self.save_json_button.clicked.connect(self.save_config)
self.quit_button.clicked.connect(self.die)
if self.json_file is not None:
self.restore(self.json_file)
def __minimumScrollbarSizeHint(self):
size = self.__content.minimumSizeHint()
extend = self.style().pixelMetric(qt.QStyle.PM_ScrollBarExtent)
size = qt.QSize(size.width() + extend, 100)
return size
def closeEvent(self, event):
context = self.__context
if context is not None:
self.__context.saveWindowLocationSettings("main-window", self)
def __fireBatchProcess(self):
self.batchProcessRequested.emit()
def die(self):
logger.debug("bye bye")
self.deleteLater()
def help(self):
logger.debug("Please, help")
url = projecturl.get_documentation_url("man/pyFAI-integrate.html")
qt.QDesktopServices.openUrl(qt.QUrl(url))
def get_config(self):
"""Read the configuration of the plugin and returns it as a dictionary
:return: dict with all information.
"""
config = self.__workerConfigurator.getConfig()
return config
def dump(self, filename=None):
"""
Dump the status of the current widget to a file in JSON
:param filename: path where to save the config
:type filename: string
:return: dict with configuration
"""
to_save = self.get_config()
if filename is None:
filename = self.json_file
if filename is not None:
logger.info("Dump to %s", filename)
try:
with open(filename, "w") as myfile:
json.dump(to_save, myfile, indent=4)
except IOError as error:
logger.error("Error while saving config: %s", error)
else:
logger.debug("Saved")
return to_save
def restore(self, filename=".azimint.json"):
"""Restore from JSON file the status of the current widget
:param filename: path where the config was saved
:type filename: str
"""
logger.debug("Restore from %s", filename)
if not op.isfile(filename):
logger.error("No such file: %s", filename)
return
with open(filename) as f:
data = json.load(f)
self.set_config(data)
def set_config(self, dico):
"""Setup the widget from its description
:param dico: dictionary with description of the widget
:type dico: dict
"""
dico = integration_config.normalize(dico)
self.__workerConfigurator.setConfig(dico)
def set_input_data(self, stack):
self.input_data = stack
def save_config(self):
logger.debug("save_config")
result = qt.QFileDialog.getSaveFileName(
caption="Save configuration as json",
directory=self.json_file,
filter="Config (*.json)")
if isinstance(result, tuple):
# PyQt5 compatibility
result = result[0]
json_file = result
if json_file:
self.dump(json_file)
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