pymca-users

[PyMca] ROI Imaging Tool: Stack Simple Fitting

[PyMca g. p. m. list. <pym...@li...>]

Dear all,

 

I am currently using the ROI Imaging Tool to visualise various .edf mapping. I am trying to use the Stack Simple Fitting plugin to fit various curves to my signal. 

 

When I click the "ADD" button (to add function I suppose), the error message "Function not imported" occures. I am using this wrong? I went into the code and it seems that a dialog box should pop up (module SimpleFitGui.py, in PyMca5.PyMcaGui.math.fitting, line 219) in order to pick a file (maybe I am totally wrong though). Does anyone ever used this, and if yes could you help me ?

 

Thanks in advance for you time and have a nice week-end.

 

Best regards, 

 

Raphaël

[PyMca] ROI Imaging Tool: Stack Simple Fitting

[PyMca g. p. m. list. <pym...@li...>]

Dear all,

 

I am currently using the ROI Imaging Tool to visualise various .edf mapping. I am trying to use the Stack Simple Fitting plugin to fit various curves to my signal.

 

Regarding this, I would like to raise two points. First when I try to add a fuction using the ADD button and selecting a python file everything goes okay, the function appears on the list, but when I estimate and start fit, it raises: : You should reconsider how to write your function.

 

The python script I am using is the following one:

from numpy import *


def gauss(param, t):
param = float(param)
dummy = 2.35482 * (t - param[3])/param[4]
return param[0] + param[1] * t + param[2] * exp(-0.5*dummy*dummy)


FUNCTION = [gauss]

PARAMETERS = [["Constant", "Linear", "Height", "Position", "FWHM"]]

THEORY = ["My Gaussian"]

ESTIMATE =[None]


CONFIGURE = [None]
I guess this is not the right format for describing the function?

 

The second point I'd like to underline is more related to the capabilities of the Stack Simple Fitting module. I would like to know if it is possible to implement non-analytical functions for the fit: I have a 1-D array representing an certain spectrum (the excitation source) that I'd like to use to fit my signal, on which appears this certain spectrum. Is it possible to fit a 1D array, with maybe two parameters that would be a scale for the values and maybe a shift along x axis for exemple ? I guess it would raises other questions (if my 1D array is not the same lenght of my signal, a resize might be necessary). 

 

Thanks for any help provided, 

 

Best regards

 

Raphael

Re: [PyMca] [ext] ROI Imaging Tool: Stack Simple Fitting

[PyMca g. p. m. list. <pym...@li...>]

Dear Raphael,

I have unsuscribed myself from the mailing list, but I keep getting the emails here. Could you put me out of the list please?

Thanks!
Kind regards

Yavuz O. Uca
________________________________
From: PyMca general purpose mailing list. [pym...@li...]
Sent: Thursday, November 19, 2020 4:36 PM
To: pym...@li...
Subject: [ext] [PyMca] ROI Imaging Tool: Stack Simple Fitting


Dear all,



I am currently using the ROI Imaging Tool to visualise various .edf mapping. I am trying to use the Stack Simple Fitting plugin to fit various curves to my signal.



Regarding this, I would like to raise two points. First when I try to add a fuction using the ADD button and selecting a python file everything goes okay, the function appears on the list, but when I estimate and start fit, it raises: <class 'TypeError'>: You should reconsider how to write your function.



The python script I am using is the following one:

from numpy import *


def gauss(param, t):
    param = float(param)
    dummy = 2.35482 * (t - param[3])/param[4]
    return param[0] + param[1] * t + param[2] * exp(-0.5*dummy*dummy)


FUNCTION = [gauss]

PARAMETERS = [["Constant", "Linear", "Height", "Position", "FWHM"]]

THEORY = ["My Gaussian"]

ESTIMATE =[None]


CONFIGURE = [None]

I guess this is not the right format for describing the function?



The second point I'd like to underline is more related to the capabilities of the Stack Simple Fitting module. I would like to know if it is possible to implement non-analytical functions for the fit: I have a 1-D array representing an certain spectrum (the excitation source) that I'd like to use to fit my signal, on which appears this certain spectrum. Is it possible to fit a 1D array, with maybe two parameters that would be a scale for the values and maybe a shift along x axis for exemple ? I guess it would raises other questions (if my 1D array is not the same lenght of my signal, a resize might be necessary).



Thanks for any help provided,



Best regards



Raphael

Re: [PyMca] ROI Imaging Tool: Stack Simple Fitting

[PyMca g. p. m. list. <pym...@li...>]

Dear Raphael,

It seems python does not any longer support numpy.float([1, 2, 3])

Replacing your param = float(param) by param = array(param, dtype=float)
should be enough.

The code below works for me:

Re: [PyMca] ROI Imaging Tool: Stack Simple Fitting

[PyMca g. p. m. list. <pym...@li...>]

Dear Raphaël,

Thank you for your feedback.

The attached file should solve that problem. It will be in next release.

Best regards,

Armando