4 import libhookecurve as lhc
7 #Dummy class to provide ext and ret methods to the data list.
11 return self[0:halflen]
17 class jpkDriver(lhc.Driver):
19 def __init__(self, filename):
20 self.filename=filename #self.filename can always be useful, and should be defined
21 self.filedata = open(filename,'r') #We open the file
22 self.filelines=self.filedata.readlines()
24 '''These are two strings that can be used by Hooke commands/plugins to understand what they are looking at. They have no other
25 meaning. They have to be somehow defined however - commands often look for those variables.
27 self.filetype should contain the name of the exact filetype defined by the driver (so that filetype-specific commands can know
28 if they're dealing with the correct filetype)
29 self.experiment should contain instead the type of data involved (for example, various drivers can be used for force-clamp experiments,
30 but hooke commands could like to know if we're looking at force clamp data, regardless of their origin, and not other
33 Of course, all other variables you like can be defined in the class.
36 self.experiment = 'smfsz'
45 we define our magic heuristic for HemingClamp files
47 myfile=file(self.filename)
48 headerlines=myfile.readlines()[0:3]
50 if headerlines[0][0:11]=='# xPosition' and headerlines[1][0:11]=='# yPosition':
58 def _read_data_segment(self):
59 #routine that actually reads the data
67 self.springconstant=0 #if we don't meet any spring constant, use deflection...
69 for line in self.filelines:
70 #we meet the segment defining the order of data columns
72 if line[0:9]=='# columns':
73 splitline=line.split()[2:]
74 height_ms_index=splitline.index('smoothedStrainGaugeHeight')
75 height_m_index=splitline.index('strainGaugeHeight')
76 height_index=splitline.index('height')
77 v_deflection_index=splitline.index('vDeflection')
78 #h_deflection=splitline.index('hDeflection')
80 if line[0:16]=='# springConstant':
81 self.springconstant=float(line.split()[2])
83 if line[0] != '#' and len(line.split())>1:
85 height_ms.append(float(dataline[height_ms_index]))
86 height_m.append(float(dataline[height_m_index]))
87 height.append(float(dataline[height_index]))
88 v_deflection.append(float(dataline[v_deflection_index]))
89 #h_deflection.append(float(dataline[h_deflection_index]))
91 if self.springconstant != 0:
92 force=[item*self.springconstant for item in v_deflection]
93 else: #we have measured no spring constant :(
96 height_ms=[item*-1 for item in height_ms]
97 height_m=[item*-1 for item in height_m]
98 height=[item*-1 for item in height]
100 return DataChunk(height_ms),DataChunk(height_m),DataChunk(height),DataChunk(v_deflection),DataChunk(force)
102 def default_plots(self):
104 height_ms,height_m,height,v_deflection,force=self._read_data_segment()
106 height_ms_ext=height_ms.ext()
107 height_ms_ret=height_ms.ret()
108 force_ext=force.ext()
109 force_ret=force.ret()
110 #reverse the return data, to make it coherent with hooke standard
111 height_ms_ret.reverse()
114 main_plot=lhc.PlotObject()
115 main_plot.add_set(height_ms_ext,force_ext)
116 main_plot.add_set(height_ms_ret,force_ret)
120 if self.springconstant != 0:
121 main_plot.units=['meters','force']
123 main_plot.units=['meters','meters']
125 main_plot.normalize_vectors()
127 main_plot.destination=0
128 main_plot.title=self.filename