In [1]:

    

%matplotlib notebook
import numpy as np
import matplotlib.pyplot as plt
import os
from pyxrf.model.command_tools import fit_pixel_data_and_save


    

    




/Users/Li/miniconda2/envs/pyxrf_dev/lib/python2.7/site-packages/IPython/html.py:14: ShimWarning: The `IPython.html` package has been deprecated. You should import from `notebook` instead. `IPython.html.widgets` has moved to `ipywidgets`.
  "`IPython.html.widgets` has moved to `ipywidgets`.", ShimWarning)

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# define working directory and file names


    

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wd = '/Users/Li/Research/Experiment/Miller_APS_July2016/e152143_Miller/img.dat.old'


    

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runid_list = [475, 474, 470]
filelist = ['bnp_fly0{}.h5'.format(n) for n in runid_list]


    

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filelist


    

    
Out[16]:





['bnp_fly0475.h5', 'bnp_fly0474.h5', 'bnp_fly0470.h5']

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# define parameter file, which also stays at the same wd


    

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param_file = 'bnp_fly_cell1.json'


    

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# fit data, need to define data_from='2IDE-APS'


    

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for fname in filelist:
    fit_pixel_data_and_save(wd, fname, param_file_name=param_file, data_from='2IDE-APS')


    

    




file path is /Users/Li/Research/Experiment/Miller_APS_July2016/e152143_Miller/img.dat.old/bnp_fly0475.h5
Time used for pixel fitting for file bnp_fly0475.h5 is : 4.64956402779
file path is /Users/Li/Research/Experiment/Miller_APS_July2016/e152143_Miller/img.dat.old/bnp_fly0474.h5
Time used for pixel fitting for file bnp_fly0474.h5 is : 5.0111720562
file path is /Users/Li/Research/Experiment/Miller_APS_July2016/e152143_Miller/img.dat.old/bnp_fly0470.h5
Time used for pixel fitting for file bnp_fly0470.h5 is : 4.57977819443






    




/Users/Li/miniconda2/envs/pyxrf_dev/lib/python2.7/site-packages/numpy/lib/function_base.py:3834: RuntimeWarning: Invalid value encountered in percentile
  RuntimeWarning)

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