#/*##########################################################################
#
# The PyMca X-Ray Fluorescence Toolkit
#
# Copyright (c) 2004-2014 European Synchrotron Radiation Facility
#
# This file is part of the PyMca X-ray Fluorescence Toolkit developed at
# the ESRF by the Software group.
#
# 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.
#
#############################################################################*/
__author__ = "V.A. Sole - ESRF Data Analysis"
__contact__ = "sole@esrf.fr"
__license__ = "MIT"
__copyright__ = "European Synchrotron Radiation Facility, Grenoble, France"
import sys
import os
import numpy
import types
from . import DataObject
from PyMca5.PyMcaIO import specfilewrapper as specfile
SOURCE_TYPE = "SpecFile"
DEBUG = 0
# Scan types
# ----------
SF_EMPTY = 0 # empty scan
SF_SCAN = 1 # non-empty scan
SF_MESH = 2 # mesh scan
SF_MCA = 4 # single mca
SF_NMCA = 8 # multi mca (more than 1 mca per acq)
SF_UMCA = 16 # mca number does not match pts number
[docs]class SpecFileDataSource(object):
Error= "SpecFileDataError"
def __init__(self, nameInput):
if type(nameInput) == type([]):
nameList = nameInput
else:
nameList = [nameInput]
if len(nameList) > 1:
#who knows if one day will make selections thru several files...
raise TypeError("Constructor needs string as first argument")
if sys.version < '3.0':
testTypes = [types.StringType, types.UnicodeType]
else:
testTypes = [type("")]
for name in nameList:
if type(name) not in testTypes:
raise TypeError("Constructor needs string as first argument")
self.sourceName = nameInput
self.sourceType = SOURCE_TYPE
self.__sourceNameList = nameList
self.__source_info_cached = None
self.refresh()
[docs] def refresh(self):
self._sourceObjectList=[]
self.__fileHeaderList = []
for name in self.__sourceNameList:
if not os.path.exists(name):
raise ValueError("File %s does not exists" % name)
for name in self.__sourceNameList:
self._sourceObjectList.append(specfile.Specfile(name))
self.__fileHeaderList.append(False)
self.__lastKeyInfo = {}
[docs] def getSourceInfo(self):
"""
Returns information about the specfile object created by
the constructor to give application possibility to know about
it before loading.
Returns a dictionary with the key "KeyList" (list of all available keys
in this source). Each element in "KeyList" has the form 'n1.n2' where
n1 is the scan number and n2 the order number in file starting at 1.
"""
return self.__getSourceInfo()
def __getSourceInfo(self):
scanlist=self.__getScanList()
source_info={}
source_info["Size"] = len(scanlist)
source_info["KeyList"] = scanlist
source_info["SourceType"] = SOURCE_TYPE
num_mca=[]
num_pts=[]
commands=[]
sf_type=[]
for i in scanlist:
sel=self._sourceObjectList[0].select(i)
if self.__fileHeaderList[0] == False:
try:
self.__fileHeaderList[0] = sel.fileheader('')
except:
self.__fileHeaderList[0] = None
try: n= sel.nbmca()
except: n= 0
num_mca.append(n)
try: n= sel.lines()
except: n= 0
num_pts.append(n)
try: n= sel.command()
except: n= ""
commands.append(n)
source_info["FileHeader"]=self.__fileHeaderList[0]
source_info["NumMca"]=num_mca
source_info["NumPts"]=num_pts
source_info["Commands"]= commands
source_info["ScanType"]= map(self.__getScanType, num_pts, num_mca, commands)
self.__source_info_cached = source_info
return source_info
def __getScanList(self):
aux= self._sourceObjectList[0].list().split(",")
newlistcount=[]
newlist=[]
for i in aux:
if not (":" in i):
start_index=end_index=int(i)
else:
s= i.split(":")
start_index=int(s[0])
end_index=int(s[1])
for j in range(start_index,end_index+1):
newlist.append(j)
newlistcount.append(newlist.count(j))
for i in range(len(newlist)):
newlist[i]="%d.%d" % (newlist[i],newlistcount[i])
return newlist
def __getScanType(self, num_pts, num_mca, command):
stype= SF_EMPTY
if num_pts>0:
if command is None:
stype= SF_SCAN
elif "mesh" in command:
stype= SF_MESH
else:
stype= SF_SCAN
if num_mca%num_pts:
stype+= SF_UMCA
elif num_mca==num_pts:
stype+= SF_MCA
elif num_mca>0:
stype+= SF_NMCA
else:
if num_mca==1:
stype= SF_MCA
elif num_mca>1:
stype= SF_NMCA
return stype
[docs] def getKeyInfo (self, key):
"""
If key given returns information of a perticular key.
"""
fileName = self.__sourceNameList[0]
key_type= self.__getKeyType(key)
if key_type=="scan": scan_key= key
elif key_type=="mca": (scan_key, mca_no)=self.__getMcaPars(key)
self.__lastKeyInfo[key] = os.path.getmtime(fileName)
return self.__getScanInfo(scan_key)
def __getKeyType (self,key):
count= key.count('.')
if (count==1):
return "scan"
elif (count==2) or (count==3):
return "mca"
else:
raise KeyError("SpecFileDataSource: Invalid key")
def __getScanInfo(self, scankey):
index = 0
sourceObject = self._sourceObjectList[index]
scandata= sourceObject.select(scankey)
info={}
info["SourceType"] = SOURCE_TYPE
#doubts about if refer to the list or to the individual file
info["SourceName"] = self.sourceName
info["Key"] = scankey
info['FileName'] = self.__sourceNameList[index]
if self.__fileHeaderList[index] == False:
try:
self.__fileHeaderList[index] = scandata.fileheader('')
except:
self.__fileHeaderList[index] = None
info["FileHeader"] = self.__fileHeaderList[index]
try: info["Number"] = scandata.number()
except: info["Number"] = None
try: info["Order"] = scandata.order()
except: info["Order"] = None
try: info["Cols"] = scandata.cols()
except: info["Cols"] = 0
try: info["Lines"] = scandata.lines()
except: info["Lines"] = 0
try: info["Date"] = scandata.date()
except: info["Date"] = None
if hasattr(scandata, "allmotors"):
try:
info["MotorNames"] = scandata.allmotors()
except:
info["MotorNames"] = None
else:
try:
info["MotorNames"] = sourceObject.allmotors()
except:
info["MotorNames"] = None
try: info["MotorValues"] = scandata.allmotorpos()
except: info["MotorValues"] = None
try: info["LabelNames"] = scandata.alllabels()
except: info["LabelNames"] = []
try: info["Command"] = scandata.command()
except: info["Command"] = None
try: info["Header"] = scandata.header("")
except: info["Header"] = None
try: info["NbMca"] = scandata.nbmca()
except: info["NbMca"] = 0
try: info["hkl"] = scandata.hkl()
except: info["hkl"] = None
if info["NbMca"]:
if info["Lines"]>0 and info["NbMca"]%info["Lines"]==0:
info["NbMcaDet"]= info["NbMca"]/info["Lines"]
else:
info["NbMcaDet"]= info["NbMca"]
info["ScanType"]= self.__getScanType(info["Lines"], info["NbMca"], info["Command"])
return info
def __getMcaInfo(self, mcano, scandata, info=None):
if info is None: info = {}
mcainfo= {}
if "NbMcaDet" in info:
det= info["NbMcaDet"]
if info["Lines"]>0:
mcainfo["McaPoint"]= int(mcano/info["NbMcaDet"])+(mcano%info["NbMcaDet"]>0)
mcainfo["McaDet"]= mcano-((mcainfo["McaPoint"]-1)*info["NbMcaDet"])
try: mcainfo["LabelValues"]= scandata.dataline(mcainfo["McaPoint"])
except: mcainfo["LabelValues"]= None
else:
mcainfo["McaPoint"]= 0
mcainfo["McaDet"]= mcano
mcainfo["LabelValues"]= None
calib= scandata.header("@CALIB")
mcainfo["McaCalib"]=[0.0,1.0,0.0]
if len(calib):
if len(calib) == info["NbMcaDet"]:
calib = [calib[mcainfo["McaDet"]-1]]
else:
if DEBUG:
print("Warning","Number of calibrations does not match number of MCAs")
if len(calib) == 1:
pass
else:
raise ValueError("Number of calibrations does not match number of MCAs")
ctxt= calib[0].split()
if len(ctxt)==4:
#try:
if 1:
cval= [ float(ctxt[1]), float(ctxt[2]), float(ctxt[3]) ]
mcainfo["McaCalib"]= cval
else:
#except:
mcainfo["McaCalib"]=[0.0,1.0,0.0]
ctime= scandata.header("@CTIME")
if len(ctime):
if len(ctime) == info["NbMcaDet"]:
ctime = [ctime[mcainfo["McaDet"]-1]]
else:
if DEBUG:
print("Warning","Number of counting times does not match number of MCAs")
if len(ctime) == 1:
pass
else:
raise ValueError("Number of counting times does not match number of MCAs")
ctxt= ctime[0].split()
if len(ctxt)==4:
try:
mcainfo["McaPresetTime"]= float(ctxt[1])
mcainfo["McaLiveTime"]= float(ctxt[2])
mcainfo["McaRealTime"]= float(ctxt[3])
except:
pass
chann = scandata.header("@CHANN")
if len(chann):
if len(chann) == info["NbMcaDet"]:
chann = [chann[mcainfo["McaDet"] - 1]]
else:
if DEBUG:
print("Warning","Number of @CHANN information does not match number of MCAs")
if len(chann) == 1:
pass
else:
raise ValueError("Number of @CHANN information does not match number of MCAs")
ctxt= chann[0].split()
if len(ctxt)==5:
mcainfo['Channel0'] = float(ctxt[2])
else:
mcainfo['Channel0'] = 0.0
else:
mcainfo['Channel0'] = 0.0
return mcainfo
def __getMcaPars(self,key):
index = 0
nums= key.split('.')
size = len(nums)
sel_key = nums[0] + "." + nums[1]
if size==3:
mca_no=int(nums[2])
elif size==4:
sel=self._sourceObjectList[index].select(sel_key)
try: lines = sel.lines()
except: lines=0
if nums[3]==0: mca_no=int(nums[2])
else: mca_no=((int(nums[3])-1)*lines)+int(nums[2])
else:
raise KeyError("SpecFileData: Invalid key")
return (sel_key,mca_no)
[docs] def getDataObject(self,key,selection=None):
"""
Parameters:
* key: key to be read from source. It is a string
using the following formats:
"s.o": loads all counter values (s=scan number, o=order)
- if ScanType==SCAN: in a 2D array (mot*cnts)
- if ScanType==MESH: in a 3D array (mot1*mot2*cnts)
- if ScanType==MCA: single MCA in 1D array (0:channels)
"s.o.n": loads a single MCA in a 1D array (0:channels)
- if ScanType==NMCA: n is the MCA number from 1 to N
- if ScanType==SCAN+MCA: n is the scan point number (from 1)
- if ScanType==MESH+MCA: n is the scan point number (from 1)
"s.o.p.n": loads a single MCA in a 1D array (0:channels)
- if ScanType==SCAN+NMCA:
p is the point number in the scan
n is the MCA device number
- if ScanType==MESH+MCA:
p is first motor index
n is second motor index
"s.o.MCA": loads all MCA in an array
- if ScanType==SCAN+MCA: 2D array (pts*mca)
- if ScanType==NMCA: 2D array (mca_det*mca)
- if ScanType==MESH+MCA: 3D array (pts_mot1*pts_mot2*mca)
- if ScanType==SCAN+NMCA: 3D array (pts_mot1*mca_det*mca)
- if ScanType==MESH+NMCA:
creates N data page, one for each MCA device,
with a 3D array (pts_mot1*pts_mot2*mca)
"""
key_type= self.__getKeyType(key)
if key_type=="scan":
scan_key= key
elif key_type=="mca":
(scan_key, mca_no)=self.__getMcaPars(key)
if self.__source_info_cached is None:
sourceinfo = self.getSourceInfo()
sourcekeys = sourceinfo['KeyList']
else:
sourceinfo = self.__source_info_cached
sourcekeys = sourceinfo['KeyList']
if scan_key not in sourcekeys:
sourceinfo = self.getSourceInfo()
sourcekeys = sourceinfo['KeyList']
if scan_key not in sourcekeys:
raise KeyError("Key %s not in source keys" % key)
mca3D = False
if DEBUG:
print("SELECTION = ", selection)
print("key_type = ", key_type)
if key_type == "scan":
if selection is not None:
if 'mcalist' in selection:
mca3D = True
if (key_type=="scan") and (not mca3D):
output = self._getScanData(key, raw = True)
output.x = None
output.y = None
output.m = None
output.info['selection'] = selection
if selection is None:
output.info['selectiontype'] = "2D"
return output
elif type(selection) != type({}):
#I only understand index selections
raise TypeError("Only selections of type {x:[],y:[],m:[]} understood")
else:
if 'x' in selection:
indexlist = []
for labelindex in selection['x']:
if labelindex != 0:
if 'cntlist' in selection:
label = selection['cntlist'][labelindex]
else:
label = output.info['LabelNames'][labelindex]
else:
label = output.info['LabelNames'][labelindex]
if label not in output.info['LabelNames']:
raise ValueError("Label %s not in scan labels" % label)
index = output.info['LabelNames'].index(label)
if output.x is None:
output.x = []
output.x.append(output.data[:, index])
indexlist.append(index)
output.info['selection']['x'] = indexlist
if 'y' in selection:
indexlist = []
for labelindex in selection['y']:
if 'cntlist' in selection:
label = selection['cntlist'][labelindex]
else:
label = output.info['LabelNames'][labelindex]
if label not in output.info['LabelNames']:
raise ValueError("Label %s not in scan labels" % label)
index = output.info['LabelNames'].index(label)
if output.y is None:
output.y = []
output.y.append(output.data[:, index])
indexlist.append(index)
output.info['selection']['y'] = indexlist
if 'm' in selection:
indexlist = []
for labelindex in selection['m']:
if 'cntlist' in selection:
label = selection['cntlist'][labelindex]
else:
label = output.info['LabelNames'][labelindex]
if label not in output.info['LabelNames']:
raise ValueError("Label %s not in scan labels" % label)
index = output.info['LabelNames'].index(label)
if output.m is None:
output.m = []
output.m.append(output.data[:, index])
indexlist.append(index)
output.info['selection']['m'] = indexlist
output.info['selection']['cntlist'] = output.info['LabelNames']
output.info['selectiontype'] = "1D"
if output.x is not None:
output.info['selectiontype'] = "%dD" % len(output.x)
output.data = None
elif key_type=="mca":
output = self._getMcaData(key)
selectiontype = "1D"
if selection is not None:
selectiontype = selection.get('selectiontype', "1D")
output.info['selectiontype'] = selectiontype
if output.info['selectiontype'] not in ['2D', '3D', 'STACK']:
ch0 = int(output.info['Channel0'])
output.x = [numpy.arange(ch0, ch0 + len(output.data)).astype(numpy.float)]
output.y = [output.data[:].astype(numpy.float)]
output.m = None
output.data = None
else:
output.x = None
output.y = None
output.m = None
output.data = None
npoints = output.info['NbMca']/output.info['NbMcaDet']
index = 0
scan_obj = self._sourceObjectList[index].select(scan_key)
SPECFILE = True
if isinstance(self._sourceObjectList[index], specfile.specfilewrapper):
SPECFILE = False
for i in range(npoints):
if SPECFILE:
wmca_no= mca_no + output.info['NbMcaDet'] * i
mcaData= scan_obj.mca(wmca_no)
else:
mca_key = '%s.%d' % (scan_key, mca_no)
mcaData = self._getMcaData(mca_key).data
if i == 0:
nChannels = mcaData.shape[0]
output.data = numpy.zeros((npoints, nChannels), numpy.float32)
output.data[i,:] = mcaData
#I have all the MCA data ready for image plot
if selectiontype == 'STACK':
output.data.shape = 1, npoints, -1
shape = output.data.shape
for i in range(len(shape)):
key = 'Dim_%d' % (i+1,)
output.info[key] = shape[i]
output.info["SourceType"] = "SpecFileStack"
output.info["SourceName"] = self.sourceName
output.info["Size"] = shape[0] * shape[1]
output.info["NumberOfFiles"] = 1
output.info["FileIndex"] = 1
elif (key_type=="scan") and mca3D:
output = self._getScanData(key, raw = True)
output.x = None
output.y = None
output.m = None
#get the number of counters in the scan
if 'cntlist' in selection:
ncounters = len(selection['cntlist'])
else:
ncounters = output.info['LabelNames']
# For the time being assume only one mca can be selected
detectorNumber = selection['y'][0] - ncounters
#read the first mca data of the first point
mca_key = '%s.%d.%d' % (key, 1+detectorNumber, 1)
mcaData = self._getMcaData(mca_key)
ch0 = int(mcaData.info['Channel0'])
calib = mcaData.info['McaCalib']
nChannels = float(mcaData.data.shape[0])
channels = numpy.arange(nChannels) + ch0
#apply the calibration
channels = calib[0] + calib[1] * channels +\
calib[2] * channels * channels
ones =numpy.ones(nChannels)
#get the different x components
xselection = selection.get('x', [])
if len(xselection) != 2:
raise ValueError("You have to select two X axes")
indexlist = []
for labelindex in xselection:
if labelindex != 0:
if 'cntlist' in selection:
label = selection['cntlist'][labelindex]
else:
label = output.info['LabelNames'][labelindex]
else:
label = output.info['LabelNames'][labelindex]
if label not in output.info['LabelNames']:
raise ValueError("Label %s not in scan labels" % label)
index = output.info['LabelNames'].index(label)
if output.x is None:
output.x = []
output.x.append(output.data[:, index])
indexlist.append(index)
npoints = output.x[0].shape[0]
output.info['selection'] = selection
output.info['selection']['x'] = indexlist
for i in range(len(output.x)):
output.x[i] = numpy.outer(output.x[i], ones).flatten()
tmp = numpy.outer(channels, numpy.ones(float(npoints))).flatten()
output.x.append(tmp)
output.y = [numpy.zeros(nChannels * npoints,numpy.float)]
for i in range(npoints):
mca_key = '%s.%d.%d' % (key, 1+detectorNumber, 1)
mcaData = self._getMcaData(mca_key)
output.y[0][(i*nChannels):((i+1)*nChannels)] = mcaData.data[:]
if 'm' in selection:
indexlist = []
for labelindex in selection['m']:
if 'cntlist' in selection:
label = selection['cntlist'][labelindex]
else:
label = output.info['LabelNames'][labelindex]
if label not in output.info['LabelNames']:
raise ValueError("Label %s not in scan labels" % label)
index = output.info['LabelNames'].index(label)
if output.m is None:
output.m = []
output.m.append(output.data[:, index])
indexlist.append(index)
output.info['selection']['m'] = indexlist
if output.m is not None:
output.m[0] = numpy.outer(output.m[0], ones).flatten()
output.info['selection']['cntlist'] = output.info['LabelNames']
output.info['selectiontype'] = "3D"
output.info['LabelNames'] = selection['cntlist'] + selection['mcalist']
output.data = None
return output
def _getScanData(self, scan_key, raw=False):
index = 0
scan_obj = self._sourceObjectList[index].select(scan_key)
scan_info= self.__getScanInfo(scan_key)
scan_info["Key"] = scan_key
scan_info["FileInfo"] = self.__getFileInfo()
scan_type = scan_info["ScanType"]
scan_data = None
if scan_type&SF_SCAN:
try:
scan_data= numpy.transpose(scan_obj.data()).copy()
except:
raise IOError("SF_SCAN read failed")
elif scan_type&SF_MESH:
try:
if raw:
try:
scan_data= numpy.transpose(scan_obj.data()).copy()
except:
raise IOError("SF_MESH read failed")
else:
scan_array= scan_obj.data()
(mot1,mot2,cnts)= self.__getMeshSize(scan_array)
scan_data= numpy.zeros((mot1,mot2,cnts), numpy.float)
for idx in range(mot2):
scan_data[:,idx,:]= numpy.transpose(scan_array[:,idx*mot1:(idx+1)*mot1]).copy()
scan_data= numpy.transpose(scan_data).copy()
except:
raise IOError("SF_MESH read failed")
elif scan_type&SF_MCA:
try:
scan_data= scan_obj.mca(1)
except:
raise IOError("SF_MCA read failed")
elif scan_type&SF_NMCA:
try:
scan_data= scan_obj.mca(1)
except:
raise IOError("SF_NMCA read failed")
if scan_data is not None:
#create data object
dataObject = DataObject.DataObject()
#data.info = self.__getKeyInfo(key)
dataObject.info = scan_info
dataObject.data = scan_data
return dataObject
else:
raise TypeError("getData unknown type")
def _getMcaData(self, key):
index = 0
key_split= key.split(".")
scan_key= key_split[0]+"."+key_split[1]
scan_info = {}
scan_info["Key"]= key
scan_info["FileInfo"] = self.__getFileInfo()
scan_obj = self._sourceObjectList[index].select(scan_key)
scan_info.update(self.__getScanInfo(scan_key))
scan_type= scan_info["ScanType"]
scan_data= None
mca_range= [] # for each dim., (name, length, values or None)
if len(key_split)==3:
if scan_type&SF_NMCA or scan_type&SF_MCA:
try:
mca_no= int(key_split[2])
scan_data= scan_obj.mca(mca_no)
except:
raise IOError("Single MCA read failed")
if scan_data is not None:
scan_info.update(self.__getMcaInfo(mca_no, scan_obj, scan_info))
dataObject = DataObject.DataObject()
dataObject.info = scan_info
dataObject.data = scan_data
return dataObject
elif len(key_split)==4:
if scan_type==SF_SCAN+SF_NMCA:
try:
mca_no= (int(key_split[2])-1)*scan_info["NbMcaDet"] + int(key_split[3])
scan_data= scan_obj.mca(mca_no)
except:
raise IOError("SF_SCAN+SF_NMCA read failed")
elif scan_type==SF_MESH+SF_MCA:
try:
#scan_array= scan_obj.data()
#(mot1,mot2,cnts)= self.__getMeshSize(scan_array)
#mca_no= 1 + int(key_split[2]) + int(key_split[3])*mot1
mca_no= (int(key_split[2])-1)*scan_info["NbMcaDet"] + int(key_split[3])
if DEBUG:
print("try to read mca number = ",mca_no)
print("total number of mca = ",scan_info["NbMca"])
scan_data= scan_obj.mca(mca_no)
except:
raise IOError("SF_MESH+SF_MCA read failed")
elif scan_type&SF_NMCA or scan_type&SF_MCA:
try:
mca_no= (int(key_split[2])-1)*scan_info["NbMcaDet"] + int(key_split[3])
scan_data= scan_obj.mca(mca_no)
except:
raise IOError("SF_MCA or SF_NMCA read failed")
else:
raise TypeError("Unknown scan type!!!!!!!!!!!!!!!!")
if scan_data is not None:
scan_info.update(self.__getMcaInfo(mca_no, scan_obj, scan_info))
dataObject = DataObject.DataObject()
dataObject.info = scan_info
dataObject.data = scan_data
return dataObject
def __getFileInfo(self):
index = 0
source = self._sourceObjectList[index]
file_info={}
try: file_info["Title"] = source.title()
except: file_info["Title"] = None
try: file_info["User"] = source.user()
except: file_info["User"] = None
try: file_info["Date"] = source.date()
except: file_info["Date"] = None
try: file_info["Epoch"] = source.epoch()
except: file_info["Epoch"] = None
try: file_info["ScanNo"] = source.scanno()
except: file_info["ScanNo"] = None
return file_info
def __getMeshSize(self, scan_array):
""" Given the scandata array, return the size tuple of the mesh
"""
mot2_array= scan_array[1]
mot2_max= mot2_array.shape[0]
mot1_idx= 1
while mot1_idx<mot2_max and mot2_array[mot1_idx]==mot2_array[0]: mot1_idx+=1
mot2_idx= scan_array.shape[1]/mot1_idx
cnts_idx= scan_array.shape[0]
return (mot1_idx, mot2_idx, cnts_idx)
def __getScanMotorRange(self, info, obj):
name= info["LabelNames"][0]
values= obj.datacol(1)
length= values.shape[0]
return (name, values, length)
def __getMeshMotorRange(self, info, obj):
return ()
[docs] def isUpdated(self, sourceName, key):
#sourceName is redundant?
index = 0
lastmodified = os.path.getmtime(self.__sourceNameList[index])
if key not in self.__lastKeyInfo.keys():
#nothing has been read???
self.__lastKeyInfo[key] = lastmodified
return False
if lastmodified != self.__lastKeyInfo[key]:
self.__lastKeyInfo[key] = lastmodified
return True
else:
return False
source_types = { SOURCE_TYPE: SpecFileDataSource}
[docs]def DataSource(name="", source_type=SOURCE_TYPE):
try:
sourceClass = source_types[source_type]
except KeyError:
#ERROR invalid source type
raise TypeError("Invalid Source Type, source type should be one of %s" % source_types.keys())
return sourceClass(name)
if __name__ == "__main__":
import time
if len(sys.argv) not in [2,3,4]:
print("Usage: %s <filename> [<key_to_load>]")
sys.exit()
filename= sys.argv[1]
sf = SpecFileDataSource(filename)
sf = DataSource(filename)
if len(sys.argv)==2:
info= sf.getSourceInfo()
print("Filename :", sf.sourceName)
print("Number of scans :", info["Size"])
print("S# - command - pts - mca - type")
for (s,c,p,m,t) in zip(info["KeyList"],info["Commands"],info["NumPts"],info["NumMca"],info["ScanType"]):
print(s,"-",c,"-",p,"-",m,"-",t)
print("KeyList = ",info["KeyList"])
#print info['Channel0']
if len(sys.argv)==3:
t0 = time.time()
dataObject = sf.getDataObject(sys.argv[2])
t0 = time.time() - t0
info= dataObject.info
data= dataObject.data
print("Filename :", info['SourceName'])
print("Loaded key :", info["Key"])
print("Header :")
for i,v in info.items():
print("-", i, ":", v)
print("Data Shape :", data.shape)
print("read time = ",t0)
if len(sys.argv)==4:
t0 = time.time()
label = sys.argv[3]
dataObject = sf.getDataObject(sys.argv[2], selection={'x':[label],
'y':[label],
'm':[label]})
t0 = time.time() - t0
info= dataObject.info
#print dataObject.x
print(dataObject.y)
#print dataObject.x