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#/*##########################################################################
# Copyright (C) 2004-2012 European Synchrotron Radiation Facility
#
# This file is part of the PyMca X-ray Fluorescence Toolkit developed at
# the ESRF by the Software group.
#
# This toolkit is free software; you can redistribute it and/or modify it
# under the terms of the GNU General Public License as published by the Free
# Software Foundation; either version 2 of the License, or (at your option)
# any later version.
#
# PyMca is distributed in the hope that it will be useful, but WITHOUT ANY
# WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
# details.
#
# You should have received a copy of the GNU General Public License along with
# PyMca; if not, write to the Free Software Foundation, Inc.,
# 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
#
# PyMca follows the dual licensing model of Riverbank's PyQt and cannot be
# used as a free plugin for a non-free program.
#
# Please contact the ESRF industrial unit (industry@esrf.fr) if this license
# is a problem for you.
#############################################################################*/
import sys
import posixpath
try:
from PyMca import PyMcaQt as qt
from PyMca import DataObject
from PyMca.QNexusWidget import *
from PyMca import QStackWidget
from PyMca import HDF5Stack1D
except ImportError:
print("PyMcaNexusWidget importing from directory")
import PyMcaQt as qt
import DataObject
from QNexusWidget import *
import QStackWidget
import HDF5Stack1D
import h5py
DEBUG=0
class PyMcaNexusWidget(QNexusWidget):
def __init__(self, *var, **kw):
QNexusWidget.__init__(self, *var, **kw)
def itemRightClickedSlot(self, ddict):
filename = ddict['file']
name = ddict['name']
if ddict['dtype'].startswith('|S') or\
ddict['dtype'].startswith('|O'):
#handle a right click on a dataset of string type
return self.showInfoWidget(filename, name, False)
pass
elif ddict['dtype'] == '':
#handle a right click on a group
return self.showInfoWidget(filename, name, False)
else:
#handle a right click on a numeric dataset
_hdf5WidgetDatasetMenu = qt.QMenu(self)
_hdf5WidgetDatasetMenu.addAction(QString("Add to selection table"),
self._addToSelectionTable)
_hdf5WidgetDatasetMenu.addAction(QString("Show Information"),
self._showInfoWidgetSlot)
fileIndex = self.data.sourceName.index(filename)
phynxFile = self.data._sourceObjectList[fileIndex]
info = self.getInfo(phynxFile, name)
interpretation = info.get('interpretation', "")
stack1D = False
stack2D = False
nDim = len(ddict['shape'].split('x'))
if nDim > 1:
stack1D = True
if nDim == 3:
stack2D = True
if interpretation.lower() in ['image']:
stack1D = False
if interpretation.lower() in ['spectrum']:
stack2D = False
if stack1D:
_hdf5WidgetDatasetMenu.addAction(QString("Show as 1D Stack"),
self._stack1DSignal)
_hdf5WidgetDatasetMenu.addAction(QString("Load and show as 1D Stack"),
self._loadStack1DSignal)
if stack2D:
_hdf5WidgetDatasetMenu.addAction(QString("Show as 2D Stack"),
self._stack2DSignal)
_hdf5WidgetDatasetMenu.addAction(QString("Load and show as 2D Stack"),
self._loadStack2DSignal)
self._lastDatasetDict = ddict
_hdf5WidgetDatasetMenu.exec_(qt.QCursor.pos())
self._lastDatasetDict= None
return
def _stack1DSignal(self):
if DEBUG:
print("_stack1DSignal")
self._stackSignal(index=-1, load=False)
def _loadStack1DSignal(self):
if DEBUG:
print("_stack1DSignal")
self._stackSignal(index=-1, load=True)
def _loadStack2DSignal(self):
if DEBUG:
print("_loadStack2DSignal")
self._stackSignal(index=0, load=True)
def _stack2DSignal(self, load=False):
if DEBUG:
print("_stack2DSignal")
self._stackSignal(index=0, load=False)
def _stackSignal(self, index=-1, load=False):
ddict = self._lastDatasetDict
filename = ddict['file']
name = ddict['name']
sel = {}
sel['SourceName'] = self.data.sourceName * 1
sel['SourceType'] = "HDF5"
fileIndex = self.data.sourceName.index(filename)
phynxFile = self.data._sourceObjectList[fileIndex]
title = filename + " " + name
sel['selection'] = {}
sel['selection']['sourcename'] = filename
#single dataset selection
scanlist = None
sel['selection']['x'] = []
sel['selection']['y'] = [name]
sel['selection']['m'] = []
sel['selection']['index'] = index
self._checkWidgetDict()
widget = QStackWidget.QStackWidget()
widget.setWindowTitle(title)
widget.notifyCloseEventToWidget(self)
#different ways to fill the stack
if h5py.version.version < '2.0':
useInstance = True
else:
useInstance = False
groupName = posixpath.dirname(name)
if useInstance:
#this crashes with h5py 1.x
#this way it is not loaded into memory unless requested
#and cannot crash because same instance is used
stack = phynxFile[name]
else:
#create a new instance
phynxFile = h5py.File(filename, 'r')
stack = phynxFile[name]
# try to find out the "energy" axis
axesList = []
xData = None
try:
group = phynxFile[groupName]
if 'axes' in stack.attrs.keys():
axes = stack.attrs['axes']
if sys.version > '2.9':
try:
axes = axes.decode('utf-8')
except:
print("WARNING: Cannot decode axes")
axes = axes.split(":")
for axis in axes:
if axis in group.keys():
axesList.append(posixpath.join(groupName, axis))
if len(axesList):
xData = phynxFile[axesList[index]].value
except:
# I cannot afford this Nexus specific things
# to break the generic HDF5 functionality
if DEBUG:
raise
axesList = []
#the only problem is that, if the shape is not of type (a, b, c),
#it will not be possible to reshape it. In that case I have to
#actually read the values
nDim = len(stack.shape)
if (load) or (nDim != 3):
stack = stack.value
shape = stack.shape
if index == 0:
#Stack of images
n = 1
for dim in shape[:-2]:
n = n * dim
stack.shape = n, shape[-2], shape[-1]
if len(axesList):
if xData.size != n:
xData = None
else:
#stack of mca
n = 1
for dim in shape[:-1]:
n = n * dim
if nDim != 3:
stack.shape = 1, n, shape[-1]
if len(axesList):
if xData.size != shape[-1]:
xData = None
#index equal -1 should be able to handle it
#if not, one would have to uncomment next line
#index = 2
actualStack = DataObject.DataObject()
actualStack.data = stack
if xData is not None:
actualStack.x = [xData]
widget.setStack(actualStack, mcaindex=index)
wid = id(widget)
self._lastWidgetId = wid
self._widgetDict[wid] = widget
widget.show()
if __name__ == "__main__":
try:
#this is to add the 3D buttons ...
from PyMca import Object3D
except:
#not a big deal for this tests
pass
app = qt.QApplication(sys.argv)
w = PyMcaNexusWidget()
if 0:
w.setFile(sys.argv[1])
else:
import NexusDataSource
dataSource = NexusDataSource.NexusDataSource(sys.argv[1:])
w.setDataSource(dataSource)
def addSelection(sel):
print(sel)
def removeSelection(sel):
print(sel)
def replaceSelection(sel):
print(sel)
w.show()
qt.QObject.connect(w, qt.SIGNAL("addSelection"), addSelection)
qt.QObject.connect(w, qt.SIGNAL("removeSelection"), removeSelection)
qt.QObject.connect(w, qt.SIGNAL("replaceSelection"), replaceSelection)
sys.exit(app.exec_())
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