Source code for PyMca5.PyMcaIO.SpecFileAbstractClass

#!/usr/bin/env python
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# The PyMca X-Ray Fluorescence Toolkit
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__author__ = "V.A. Sole - ESRF Data Analysis"
__contact__ = "sole@esrf.fr"
__license__ = "MIT"
__copyright__ = "European Synchrotron Radiation Facility, Grenoble, France"
"""
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
[docs]class SpecFileAbstractClass(object): def __init__(self, filename): if not os.path.exists(filename): return None self.motorNames = []
[docs] 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]
[docs] 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)
[docs] def scanno(self): """ Gives back the number of scans in the file """ return 0
[docs] def allmotors(self): return self.motorNames
[docs]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])
[docs] def alllabels(self): """ These are the labels associated to the counters """ if self.scantype == 'SCAN': return self.labels else: return []
[docs] def allmotorpos(self): return []
[docs] def cols(self): return self.__cols
[docs] 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
[docs] def data(self): return numpy.transpose(self.__data)
[docs] def datacol(self,col): return self.__data[:,col]
[docs] def dataline(self,line): return self.__data[line,:]
[docs] def date(self): text = 'sometime' return text
[docs] 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
[docs] 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 == '@CTIME': # expected to send Preset Time, Live Time, Real (Elapsed) Time 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
[docs] def order(self): return self.__order
[docs] def number(self): return self.__number
[docs] def lines(self): if self.scantype == 'SCAN': return self.rows else: return 0
[docs] def nbmca(self): if self.scantype == 'SCAN': return 0 else: return self.__cols
[docs] def mca(self,number): if number <= 0: raise IndexError("Mca numbering starts at 1") elif number > self.nbmca(): raise IndexError("Only %d MCAs in file" % self.nbmca()) if hasattr(self.__data, "shape"): return self.__data[:,number-1] else: return self.__data[number-1]
[docs]def test(): pass
if __name__ == "__main__": test()