/usr/share/pyshared/PyMca/SpecFileAbstractClass.py is in pymca 4.5.0-4.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 | #!/usr/bin/env python
#/*##########################################################################
# Copyright (C) 2004-2011 European Synchrotron Radiation Facility
#
# This file is part of the PyMCA X-ray Fluorescence Toolkit developed at
# the ESRF by the Beamline Instrumentation Software Support (BLISS) 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., 59 Temple Place,
# Suite 330, Boston, MA 02111-1307, USA.
#
# PyMCA follows the dual licensing model of Trolltech's Qt and 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.
#############################################################################*/
"""
This class just puts in evidence the Specfile methods called from
PyMca.
It can be used to wrap other formats as specile
"""
import os
import numpy
DEBUG = 0
class SpecFileAbstractClass(object):
def __init__(self, filename):
if not os.path.exists(filename):
return None
self.motorNames = []
def list(self):
"""
If there is only one scan returns 1:1
with two scans returns 1:2
"""
if DEBUG:
print("list method called")
return "1:1"
def __getitem__(self, item):
"""
Returns the scan data
"""
if DEBUG:
print("__getitem__ called")
return self.scandata[item]
def select(self, key):
"""
key is of the from s.o
scan number, scan order
"""
n = key.split(".")
return self.__getitem__(int(n[0])-1)
def scanno(self):
"""
Gives back the number of scans in the file
"""
return 0
def allmotors(self):
return self.motorNames
class SpecFileAbstractScan(object):
def __init__(self, data, scantype=None, identification=None, scanheader=None, labels=None,point=True):
if identification is None:identification='1.1'
if scantype is None:scantype='SCAN'
self.scanheader = scanheader
if hasattr(data, "shape"):
if len(data.shape) == 1:
data.shape = -1, 1
self.__point = point
if scantype == 'SCAN':
(rows, cols) = data.shape
if self.__point:
self.__data = numpy.zeros((rows, cols +1 ), numpy.float32)
self.__data[:,0] = numpy.arange(rows) * 1.0
self.__data[:,1:] = data * 1
self.__cols = cols + 1
self.labels = ['Point']
else:
self.__data = numpy.zeros((rows, cols), numpy.float32)
self.__data[:,0:] = data * 1
self.__cols = cols
self.labels = []
else:
self.__data = data
if isinstance(self.__data, numpy.ndarray):
(rows, cols) = data.shape
else:
#we have a list of MCAs
rows = 0
cols = len(data)
self.__cols = cols
self.labels = []
self.scantype = scantype
self.rows = rows
if labels is None:
for i in range(cols):
self.labels.append('Column %d' % i)
else:
for label in labels:
self.labels.append('%s' % label)
n = identification.split(".")
self.__number = int(n[0])
self.__order = int(n[1])
def alllabels(self):
"""
These are the labels associated to the counters
"""
if self.scantype == 'SCAN':
return self.labels
else:
return []
def allmotorpos(self):
return []
def cols(self):
return self.__cols
def command(self):
if DEBUG:
print("command called")
text = ""
if self.scanheader is not None:
if len(self.scanheader):
text = self.scanheader[0]
return text
def data(self):
return numpy.transpose(self.__data)
def datacol(self,col):
return self.__data[:,col]
def dataline(self,line):
return self.__data[line,:]
def date(self):
text = 'sometime'
return text
def fileheader(self):
if DEBUG:
print("file header called")
labels = '#L '
for label in self.labels:
labels += ' '+label
if self.scanheader is None:
if self.scantype == 'SCAN':
return ['#S 1 Unknown command','#N %d' % self.cols(),labels]
else:
return ['#S 1 Unknown command']
else:
if DEBUG:
print("returning ",self.scanheader)
return self.scanheader
def header(self,key):
if key == 'S': return self.fileheader()[0]
elif key == 'N':return self.fileheader()[-2]
elif key == 'L':return self.fileheader()[-1]
elif key == '@CALIB':
output = []
if self.scanheader is None: return output
for line in self.scanheader:
if line.startswith(key) or\
line.startswith('#'+key):
output.append(line)
return output
elif key == "" or key == " ":
return self.fileheader()
elif self.scanheader is None:
return []
else:
output = []
for line in self.scanheader:
if line.startswith("#"+key) or\
line.startswith(key):
output.append(line)
return output
def order(self):
return self.__order
def number(self):
return self.__number
def lines(self):
if self.scantype == 'SCAN':
return self.rows
else:
return 0
def nbmca(self):
if self.scantype == 'SCAN':
return 0
else:
return self.__cols
def mca(self,number):
if number <= 0:
raise IndexError("Mca numbering starts at 1")
if hasattr(self.__data, "shape"):
return self.__data[:,number-1]
else:
return self.__data[number-1]
def test():
pass
if __name__ == "__main__":
test()
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