Run Regularized Inversion Code

In [1]:

    

import os

import numpy as np
import pandas
from scipy.optimize import curve_fit
import scipy.linalg
import scipy.stats
from scipy.interpolate import interp1d,splev,splrep
from scipy.ndimage import map_coordinates,gaussian_filter
import matplotlib.pyplot as plt
import matplotlib.colors
from matplotlib.ticker import LogFormatter
import seaborn as sns
import astropy.units as u
import astropy.constants as const
import hissw
from sunpy.map import Map,GenericMap
import h5py
from ChiantiPy.tools import filters as ch_filters

import synthesizAR
from synthesizAR.instruments import InstrumentHinodeEIS
from synthesizAR.util import EISCube,EMCube
from synthesizAR.atomic import EmissionModel

%matplotlib inline


    

    




/home/wtb2/anaconda3/envs/systematic-ar-study/lib/python3.5/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)
WARNING: AstropyDeprecationWarning: astropy.utils.compat.odict.OrderedDict is now deprecated - import OrderedDict from the collections module instead [astropy.utils.compat.odict]
/home/wtb2/anaconda3/envs/systematic-ar-study/lib/python3.5/site-packages/matplotlib/__init__.py:1401: UserWarning:  This call to matplotlib.use() has no effect
because the backend has already been chosen;
matplotlib.use() must be called *before* pylab, matplotlib.pyplot,
or matplotlib.backends is imported for the first time.

  warnings.warn(_use_error_msg)






    




 using cli
 using CLI for selections
 reading chiantirc file

In [2]:

    

eis = InstrumentHinodeEIS([7.5e3,1.25e4]*u.s)


    

In [3]:

    

frequencies = [250,750,'750-ion',2500,5000]


    

In [12]:

    

temperature_bin_edges = 10.**(np.arange(5.6, 7.0, 0.05))*u.K


    

In [4]:

    

emission_model = EmissionModel.restore('/data/datadrive1/ar_forward_modeling/systematic_ar_study/emission_model1109_full/')


    

    




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In [5]:

    

resolved_wavelengths = np.sort(u.Quantity([rw for ion in emission_model.ions for rw in ion.resolved_wavelengths]))


    

In [6]:

    

pressure_const = 1e15*u.K*u.cm**(-3)
class FakeLoop(object):
    electron_temperature = np.logspace(5.5,7.5,100)*u.K
    density = pressure_const/electron_temperature
    
fake_loop = FakeLoop()
i_temperature,i_density = emission_model.interpolate_to_mesh_indices(fake_loop)


    

In [7]:

    

contribution_functions = {}
line_names = {}
for ion in emission_model.ions:
    for rw in ion.resolved_wavelengths:
        i_rw = np.where(ion.wavelength==rw)[0][0]
        emiss = map_coordinates(ion.emissivity[:,:,i_rw].value,
                                np.vstack([i_temperature,i_density]),order=3)*ion.emissivity.unit
        ioneq = splev(fake_loop.electron_temperature.value,
                      splrep(emission_model.temperature_mesh[:,0].value,
                             ion.fractional_ionization[:,0].value,k=1),ext=1)
        line_names[rw] = '{} {}'.format(ion.chianti_ion.meta['name'],rw.value)
        contribution_functions[rw] = (1./(np.pi*4.*u.steradian)*0.83
                                           *ioneq*ion.chianti_ion.abundance*emiss/fake_loop.density
                                           *(const.h.cgs*const.c.cgs)/rw.to(u.cm)/u.photon)


    

In [54]:

    

line_intensities = {'{}'.format(freq):{} for freq in frequencies}


    

In [55]:

    

for freq in frequencies:
    for channel in eis.channels:
        tmp = EISCube('../data/eis_intensity_{}_tn{}_t7500-12500.h5'.format(channel['name'],freq))
        if type(freq) == int:
            tmp.data = (gaussian_filter(tmp.data.value,(channel['gaussian_width']['y'].value,
                                                        channel['gaussian_width']['x'].value,0.)))*tmp.data.unit
        for rw in resolved_wavelengths:
            i_center = np.where(np.isclose(tmp.wavelength.value,rw.value,atol=1.1e-2,rtol=0.))[0]
            if len(i_center) == 0:
                continue
            line_intensities['{}'.format(freq)][rw] = tmp[i_center-5:i_center+5].integrated_intensity


    

    




WARNING: UnitsWarning: 'erg(1/2) g(1/2) / (Angstrom cm s2 sr)' contains multiple slashes, which is discouraged by the FITS standard [astropy.units.format.generic]
/home/wtb2/anaconda3/envs/systematic-ar-study/lib/python3.5/site-packages/astropy/units/quantity.py:1023: VisibleDeprecationWarning: converting an array with ndim > 0 to an index will result in an error in the future
  out = super(Quantity, self).__getitem__(key)

In [57]:

    

fig = plt.figure(figsize=(17,15))
plt.subplots_adjust(right=0.85)
cax = fig.add_axes([0.88, 0.12, 0.025, 0.75])
for i,rw in enumerate(resolved_wavelengths):
    tmp = (line_intensities['750'][rw]
           .submap(u.Quantity((270,450),u.arcsec),u.Quantity((90,360),u.arcsec))
          )
    ax = fig.add_subplot(5,5,i+1,projection=tmp)
    im = tmp.plot(axes=ax,annotate=False,title=False,
                  norm=matplotlib.colors.SymLogNorm(1,vmin=1e2,vmax=1e5)
                 )
    ax.set_title(r'{:.3f} {}'.format(rw.value,rw.unit.to_string(format='latex')))
cbar = fig.colorbar(im,cax=cax)


    

In [58]:

    

k_matrix = []
intensity_matrix = []
line_names = []
for rw in resolved_wavelengths:
    line_name = '{}_{}'.format(rw.value,rw.unit)
    line_names.append(line_name)
    k_matrix.append(contribution_functions[rw].value.tolist())
    for freq in frequencies:
        line_intensities['{}'.format(freq)][rw].save('../data/eis_integrated_intensity_{}_{}.fits'.format(freq,line_name))


    

In [59]:

    

demreg_runner = hissw.ScriptMaker(extra_paths=['/home/wtb2/Documents/codes/demreg/idl/'],
                                  ssw_path_list=['vobs','ontology'])
static_input_vars = {
                     'log_temperature':np.log10(fake_loop.electron_temperature.value).tolist(),
                     'temperature_bins':temperature_bin_edges.value.tolist(),
                     'k_matrix':k_matrix,
                     'names':line_names,
                     'error_ratio':0.25,
                     'gloci':1,'reg_tweak':1,'timed':1
                    }
save_vars = ['dem','edem','elogt','chisq','dn_reg']


    

In [60]:

    

demreg_script = """
; load intensity from each channel/line
names = {{ names }}
eis_file_list = find_file('{{ fits_file_glob }}')
read_sdo,eis_file_list,ind,intensity
; load the contribution functions or response functions (called K in Hannah and Kontar 2012)
k_matrix = {{ k_matrix }}
; load temperature array over which K is computed
log_temperature = {{ log_temperature }}

; temperature bins
temperature_bins = {{ temperature_bins }}

; crude estimate of intensity errors
intensity_errors = intensity*{{ error_ratio }}

; inversion method parameters
reg_tweak={{ reg_tweak }}
timed={{ timed }}
gloci={{ gloci }}

; run the inversion method
dn2dem_pos_nb,intensity,intensity_errors,$
              k_matrix,log_temperature,temperature_bins,$
              dem,edem,elogt,chisq,dn_reg,$
              timed=timed,gloci=gloci,reg_tweak=reg_tweak
"""


    

In [61]:

    

for freq in frequencies:
    input_vars = static_input_vars.copy()
    input_vars['fits_file_glob'] = '/home/wtb2/Documents/projects/loops-workshop-2017-talk/data/eis_integrated_intensity_{}_*.fits'.format(freq)
    tmp = demreg_runner.run([(demreg_script,input_vars)],save_vars=save_vars,cleanup=True,verbose=True)
    tmp_cube = EMCube(np.swapaxes(tmp['dem'].T,0,1)*np.diff(temperature_bin_edges.value)*(u.cm**(-5)),
                      (line_intensities['{}'.format(freq)][resolved_wavelengths[0]].meta),temperature_bin_edges)
    tmp_cube.save('../data/em_cubes_demreg_tn{}_t7500-12500.h5'.format(freq))


    

    




SSW  setup will include: <gen>

Type <sswidl> to start SSW IDL
--------------------------------------------------------
Running SSW, Last Updated: Wed Nov 2 22:22:51 GMT 2005
 
PROBLEMS? - e-mail TO: freeland@penumbra.nascom.nasa.gov
--------------------------------------------------------
IDL Version 8.5 (linux x86_64 m64). (c) 2015, Exelis Visual Information Solutions, Inc., a subsidiary of Harris Corporation.
Installation number: 401801-1.
Licensed for use by: Rice University

Executing SSW IDL_STARTUP for: GEN
Executing SSW IDL_STARTUP for: SITE
% Compiled module: SSW_PATH.
% Compiled module: SSW_INSTRUMENTS.
% Compiled module: WC_WHERE.
% Compiled module: PATHFIX.
% Compiled module: UNIQO.
% Compiled module: STRJUSTIFY.
% Compiled module: UNIQ.
% Compiled module: DEFAULT.
% Compiled module: PRSTR.
Including Paths:
 ---------------------------------
| $SSW/vobs/gen/idl               |
| $SSW/vobs/ontology/idl/jsoc     |
| $SSW/vobs/ontology/idl/gen_temp |
| $SSW/vobs/ontology/idl          |
 ---------------------------------
% SSW_PATH: Number of paths changed from 88 to 92
% Compiled module: FIND_FILE.
% Compiled module: READ_SDO.
% Compiled module: GET_FITS_NEXTEND.
% Compiled module: FITS_OPEN.
% Compiled module: SXPAR.
% Compiled module: GETTOK.
% Compiled module: VALID_NUM.
% Compiled module: SXDELPAR.
% Compiled module: REQUIRED_TAGS.
% Compiled module: MREADFITS_SHM.
% Compiled module: FILE_SIZE.
% Compiled module: WHERE_PATTERN.
% Compiled module: LAST_NELEM.
% Compiled module: ALPHAGEN.
% Compiled module: DELVARX.
% Compiled module: DELVARX2.
% Compiled module: DESTROY.
% Compiled module: IS_LENDIAN.
% Compiled module: GET_NBYTES.
% Compiled module: SWAP_ENDIAN_INPLACE.
% Compiled module: RELTIME.
% Compiled module: UT_TIME.
% Compiled module: UT_DIFF.
% Compiled module: SYSTIM.
% Compiled module: ANYTIM.
% Compiled module: IS_STRUCT.
% Compiled module: CHECKVAR.
% Compiled module: STR_LASTPOS.
% Compiled module: STR2UTC.
% Compiled module: BOOST_ARRAY.
% Compiled module: UTC2INT.
% Compiled module: TAG_EXIST.
% Compiled module: DATE2MJD.
% Compiled module: CHECK_INT_TIME.
% Compiled module: GET_LEAP_SEC.
% Compiled module: UTIME2STR.
% Compiled module: GETUTBASE.
% Compiled module: GETUT.
% Compiled module: INT2EX.
% Compiled module: DAYCNV.
% Compiled module: EX2INT.
% Compiled module: JDCNV.
% Compiled module: INT2SEC.
% Compiled module: ANYTIM2INTS.
% Compiled module: TIMSTR2EX.
% Compiled module: CHECK_TIME.
% Compiled module: FMT_TIM.
% Compiled module: GT_DAY.
% Compiled module: GT_TIME.
% Compiled module: ATIME.
% Compiled module: FCHECK.
% Compiled module: F_ATIME.
% Compiled module: TIMEGRID.
% Compiled module: CONCAT_STRUCT.
% Compiled module: INT2SECARR.
% Compiled module: MREADFITS_HEADER.
% Compiled module: HEADFITS.
% Compiled module: FXPOSIT.
% Compiled module: MRD_HREAD.
% Compiled module: FITSHEAD2STRUCT.
% Compiled module: FXADDPAR.
% Compiled module: FXPARPOS.
% Compiled module: FXPAR.
% Compiled module: FMT_TAG.
% Compiled module: DETABIFY.
% Compiled module: STRARRCOMPRESS.
% Compiled module: STRSPECIAL.
% Compiled module: STRLASTCHAR.
% Compiled module: SSW_STRSPLIT.
% Compiled module: ID_ESC.
% Compiled module: ISVALID.
% Compiled module: ID_ESC_INIT.
% Compiled module: SSW_UNIQ.
% Compiled module: ID_UNESC.
% Compiled module: MRD_STRUCT.
% Compiled module: IS_NUMBER.
% Compiled module: IS_NUMBER2.
% Compiled module: TAG_INDEX.
% Compiled module: STRMIDS.
% Compiled module: GT_TAGVAL.
% Compiled module: STR_TAGVAL.
% Compiled module: ALL_VALS.
% Compiled module: UPDATE_HISTORY.
% Compiled module: GET_CALLER.
% Compiled module: STR2NUMBER.
% Compiled module: BOOST_TAG.
% Compiled module: STRUP.
% Compiled module: GET_TAG_INDEX.
% Compiled module: IDL_RELEASE.
% Compiled module: REP_TAG_VALUE.
% Compiled module: REM_TAG.
% Compiled module: ADD_TAG.
% Compiled module: LAST_ITEM.
% Compiled module: COPY_VAR.
% Compiled module: COMP_FITS_CEN.
% Compiled module: REPLICATE2.
% Program caused arithmetic error: Floating underflow
% Compiled module: DN2DEM_POS_NB.
% Compiled module: GET_EDGES.
% Compiled module: EDGE_PRODUCTS.
% Compiled module: INTERPOL.
% Compiled module: DEMMAP_POS.
      0 of  116640,   0.0%
% Compiled module: DEM_INV_GSVDCSQ.
% Compiled module: DEM_INV_REG_PARAMETER_MAP.
   5000 of  116640,   4.3%
  10000 of  116640,   8.6%
  15000 of  116640,  12.9%
  20000 of  116640,  17.1%
  25000 of  116640,  21.4%
  30000 of  116640,  25.7%
  35000 of  116640,  30.0%
  40000 of  116640,  34.3%
  45000 of  116640,  38.6%
  50000 of  116640,  42.9%
  55000 of  116640,  47.2%
  60000 of  116640,  51.4%
  65000 of  116640,  55.7%
  70000 of  116640,  60.0%
  75000 of  116640,  64.3%
  80000 of  116640,  68.6%
  85000 of  116640,  72.9%
  90000 of  116640,  77.2%
  95000 of  116640,  81.4%
 100000 of  116640,  85.7%
 105000 of  116640,  90.0%
 110000 of  116640,  94.3%
 115000 of  116640,  98.6%
100% Done
    249.3 DEM/s
% Program caused arithmetic error: Floating divide by 0
% Program caused arithmetic error: Floating illegal operand

SSW  setup will include: <gen>

Type <sswidl> to start SSW IDL
--------------------------------------------------------
Running SSW, Last Updated: Wed Nov 2 22:22:51 GMT 2005
 
PROBLEMS? - e-mail TO: freeland@penumbra.nascom.nasa.gov
--------------------------------------------------------
IDL Version 8.5 (linux x86_64 m64). (c) 2015, Exelis Visual Information Solutions, Inc., a subsidiary of Harris Corporation.
Installation number: 401801-1.
Licensed for use by: Rice University

Executing SSW IDL_STARTUP for: GEN
Executing SSW IDL_STARTUP for: SITE
% Compiled module: SSW_PATH.
% Compiled module: SSW_INSTRUMENTS.
% Compiled module: WC_WHERE.
% Compiled module: PATHFIX.
% Compiled module: UNIQO.
% Compiled module: STRJUSTIFY.
% Compiled module: UNIQ.
% Compiled module: DEFAULT.
% Compiled module: PRSTR.
Including Paths:
 ---------------------------------
| $SSW/vobs/gen/idl               |
| $SSW/vobs/ontology/idl/jsoc     |
| $SSW/vobs/ontology/idl/gen_temp |
| $SSW/vobs/ontology/idl          |
 ---------------------------------
% SSW_PATH: Number of paths changed from 88 to 92
% Compiled module: FIND_FILE.
% Compiled module: READ_SDO.
% Compiled module: GET_FITS_NEXTEND.
% Compiled module: FITS_OPEN.
% Compiled module: SXPAR.
% Compiled module: GETTOK.
% Compiled module: VALID_NUM.
% Compiled module: SXDELPAR.
% Compiled module: REQUIRED_TAGS.
% Compiled module: MREADFITS_SHM.
% Compiled module: FILE_SIZE.
% Compiled module: WHERE_PATTERN.
% Compiled module: LAST_NELEM.
% Compiled module: ALPHAGEN.
% Compiled module: DELVARX.
% Compiled module: DELVARX2.
% Compiled module: DESTROY.
% Compiled module: IS_LENDIAN.
% Compiled module: GET_NBYTES.
% Compiled module: SWAP_ENDIAN_INPLACE.
% Compiled module: RELTIME.
% Compiled module: UT_TIME.
% Compiled module: UT_DIFF.
% Compiled module: SYSTIM.
% Compiled module: ANYTIM.
% Compiled module: IS_STRUCT.
% Compiled module: CHECKVAR.
% Compiled module: STR_LASTPOS.
% Compiled module: STR2UTC.
% Compiled module: BOOST_ARRAY.
% Compiled module: UTC2INT.
% Compiled module: TAG_EXIST.
% Compiled module: DATE2MJD.
% Compiled module: CHECK_INT_TIME.
% Compiled module: GET_LEAP_SEC.
% Compiled module: UTIME2STR.
% Compiled module: GETUTBASE.
% Compiled module: GETUT.
% Compiled module: INT2EX.
% Compiled module: DAYCNV.
% Compiled module: EX2INT.
% Compiled module: JDCNV.
% Compiled module: INT2SEC.
% Compiled module: ANYTIM2INTS.
% Compiled module: TIMSTR2EX.
% Compiled module: CHECK_TIME.
% Compiled module: FMT_TIM.
% Compiled module: GT_DAY.
% Compiled module: GT_TIME.
% Compiled module: ATIME.
% Compiled module: FCHECK.
% Compiled module: F_ATIME.
% Compiled module: TIMEGRID.
% Compiled module: CONCAT_STRUCT.
% Compiled module: INT2SECARR.
% Compiled module: MREADFITS_HEADER.
% Compiled module: HEADFITS.
% Compiled module: FXPOSIT.
% Compiled module: MRD_HREAD.
% Compiled module: FITSHEAD2STRUCT.
% Compiled module: FXADDPAR.
% Compiled module: FXPARPOS.
% Compiled module: FXPAR.
% Compiled module: FMT_TAG.
% Compiled module: DETABIFY.
% Compiled module: STRARRCOMPRESS.
% Compiled module: STRSPECIAL.
% Compiled module: STRLASTCHAR.
% Compiled module: SSW_STRSPLIT.
% Compiled module: ID_ESC.
% Compiled module: ISVALID.
% Compiled module: ID_ESC_INIT.
% Compiled module: SSW_UNIQ.
% Compiled module: ID_UNESC.
% Compiled module: MRD_STRUCT.
% Compiled module: IS_NUMBER.
% Compiled module: IS_NUMBER2.
% Compiled module: TAG_INDEX.
% Compiled module: STRMIDS.
% Compiled module: GT_TAGVAL.
% Compiled module: STR_TAGVAL.
% Compiled module: ALL_VALS.
% Compiled module: UPDATE_HISTORY.
% Compiled module: GET_CALLER.
% Compiled module: STR2NUMBER.
% Compiled module: BOOST_TAG.
% Compiled module: STRUP.
% Compiled module: GET_TAG_INDEX.
% Compiled module: IDL_RELEASE.
% Compiled module: REP_TAG_VALUE.
% Compiled module: REM_TAG.
% Compiled module: ADD_TAG.
% Compiled module: LAST_ITEM.
% Compiled module: COPY_VAR.
% Compiled module: COMP_FITS_CEN.
% Compiled module: REPLICATE2.
% Program caused arithmetic error: Floating underflow
% Compiled module: DN2DEM_POS_NB.
% Compiled module: GET_EDGES.
% Compiled module: EDGE_PRODUCTS.
% Compiled module: INTERPOL.
% Compiled module: DEMMAP_POS.
      0 of  116640,   0.0%
% Compiled module: DEM_INV_GSVDCSQ.
% Compiled module: DEM_INV_REG_PARAMETER_MAP.
   5000 of  116640,   4.3%
  10000 of  116640,   8.6%
  15000 of  116640,  12.9%
  20000 of  116640,  17.1%
  25000 of  116640,  21.4%
  30000 of  116640,  25.7%
  35000 of  116640,  30.0%
  40000 of  116640,  34.3%
  45000 of  116640,  38.6%
  50000 of  116640,  42.9%
  55000 of  116640,  47.2%
  60000 of  116640,  51.4%
  65000 of  116640,  55.7%
  70000 of  116640,  60.0%
  75000 of  116640,  64.3%
  80000 of  116640,  68.6%
  85000 of  116640,  72.9%
  90000 of  116640,  77.2%
  95000 of  116640,  81.4%
 100000 of  116640,  85.7%
 105000 of  116640,  90.0%
 110000 of  116640,  94.3%
 115000 of  116640,  98.6%
100% Done
    265.3 DEM/s
% Program caused arithmetic error: Floating divide by 0
% Program caused arithmetic error: Floating illegal operand

SSW  setup will include: <gen>

Type <sswidl> to start SSW IDL
--------------------------------------------------------
Running SSW, Last Updated: Wed Nov 2 22:22:51 GMT 2005
 
PROBLEMS? - e-mail TO: freeland@penumbra.nascom.nasa.gov
--------------------------------------------------------
IDL Version 8.5 (linux x86_64 m64). (c) 2015, Exelis Visual Information Solutions, Inc., a subsidiary of Harris Corporation.
Installation number: 401801-1.
Licensed for use by: Rice University

Executing SSW IDL_STARTUP for: GEN
Executing SSW IDL_STARTUP for: SITE
% Compiled module: SSW_PATH.
% Compiled module: SSW_INSTRUMENTS.
% Compiled module: WC_WHERE.
% Compiled module: PATHFIX.
% Compiled module: UNIQO.
% Compiled module: STRJUSTIFY.
% Compiled module: UNIQ.
% Compiled module: DEFAULT.
% Compiled module: PRSTR.
Including Paths:
 ---------------------------------
| $SSW/vobs/gen/idl               |
| $SSW/vobs/ontology/idl/jsoc     |
| $SSW/vobs/ontology/idl/gen_temp |
| $SSW/vobs/ontology/idl          |
 ---------------------------------
% SSW_PATH: Number of paths changed from 88 to 92
% Compiled module: FIND_FILE.
% Compiled module: READ_SDO.
% Compiled module: GET_FITS_NEXTEND.
% Compiled module: FITS_OPEN.
% Compiled module: SXPAR.
% Compiled module: GETTOK.
% Compiled module: VALID_NUM.
% Compiled module: SXDELPAR.
% Compiled module: REQUIRED_TAGS.
% Compiled module: MREADFITS_SHM.
% Compiled module: FILE_SIZE.
% Compiled module: WHERE_PATTERN.
% Compiled module: LAST_NELEM.
% Compiled module: ALPHAGEN.
% Compiled module: DELVARX.
% Compiled module: DELVARX2.
% Compiled module: DESTROY.
% Compiled module: IS_LENDIAN.
% Compiled module: GET_NBYTES.
% Compiled module: SWAP_ENDIAN_INPLACE.
% Compiled module: RELTIME.
% Compiled module: UT_TIME.
% Compiled module: UT_DIFF.
% Compiled module: SYSTIM.
% Compiled module: ANYTIM.
% Compiled module: IS_STRUCT.
% Compiled module: CHECKVAR.
% Compiled module: STR_LASTPOS.
% Compiled module: STR2UTC.
% Compiled module: BOOST_ARRAY.
% Compiled module: UTC2INT.
% Compiled module: TAG_EXIST.
% Compiled module: DATE2MJD.
% Compiled module: CHECK_INT_TIME.
% Compiled module: GET_LEAP_SEC.
% Compiled module: UTIME2STR.
% Compiled module: GETUTBASE.
% Compiled module: GETUT.
% Compiled module: INT2EX.
% Compiled module: DAYCNV.
% Compiled module: EX2INT.
% Compiled module: JDCNV.
% Compiled module: INT2SEC.
% Compiled module: ANYTIM2INTS.
% Compiled module: TIMSTR2EX.
% Compiled module: CHECK_TIME.
% Compiled module: FMT_TIM.
% Compiled module: GT_DAY.
% Compiled module: GT_TIME.
% Compiled module: ATIME.
% Compiled module: FCHECK.
% Compiled module: F_ATIME.
% Compiled module: TIMEGRID.
% Compiled module: CONCAT_STRUCT.
% Compiled module: INT2SECARR.
% Compiled module: MREADFITS_HEADER.
% Compiled module: HEADFITS.
% Compiled module: FXPOSIT.
% Compiled module: MRD_HREAD.
% Compiled module: FITSHEAD2STRUCT.
% Compiled module: FXADDPAR.
% Compiled module: FXPARPOS.
% Compiled module: FXPAR.
% Compiled module: FMT_TAG.
% Compiled module: DETABIFY.
% Compiled module: STRARRCOMPRESS.
% Compiled module: STRSPECIAL.
% Compiled module: STRLASTCHAR.
% Compiled module: SSW_STRSPLIT.
% Compiled module: ID_ESC.
% Compiled module: ISVALID.
% Compiled module: ID_ESC_INIT.
% Compiled module: SSW_UNIQ.
% Compiled module: ID_UNESC.
% Compiled module: MRD_STRUCT.
% Compiled module: IS_NUMBER.
% Compiled module: IS_NUMBER2.
% Compiled module: TAG_INDEX.
% Compiled module: STRMIDS.
% Compiled module: GT_TAGVAL.
% Compiled module: STR_TAGVAL.
% Compiled module: ALL_VALS.
% Compiled module: UPDATE_HISTORY.
% Compiled module: GET_CALLER.
% Compiled module: STR2NUMBER.
% Compiled module: BOOST_TAG.
% Compiled module: STRUP.
% Compiled module: GET_TAG_INDEX.
% Compiled module: IDL_RELEASE.
% Compiled module: REP_TAG_VALUE.
% Compiled module: REM_TAG.
% Compiled module: ADD_TAG.
% Compiled module: LAST_ITEM.
% Compiled module: COPY_VAR.
% Compiled module: COMP_FITS_CEN.
% Compiled module: REPLICATE2.
% Program caused arithmetic error: Floating underflow
% Compiled module: DN2DEM_POS_NB.
% Compiled module: GET_EDGES.
% Compiled module: EDGE_PRODUCTS.
% Compiled module: INTERPOL.
% Compiled module: DEMMAP_POS.
      0 of  116640,   0.0%
% Compiled module: DEM_INV_GSVDCSQ.
% Compiled module: DEM_INV_REG_PARAMETER_MAP.
   5000 of  116640,   4.3%
  10000 of  116640,   8.6%
  15000 of  116640,  12.9%
  20000 of  116640,  17.1%
  25000 of  116640,  21.4%
  30000 of  116640,  25.7%
  35000 of  116640,  30.0%
  40000 of  116640,  34.3%
  45000 of  116640,  38.6%
  50000 of  116640,  42.9%
  55000 of  116640,  47.2%
  60000 of  116640,  51.4%
  65000 of  116640,  55.7%
  70000 of  116640,  60.0%
  75000 of  116640,  64.3%
  80000 of  116640,  68.6%
  85000 of  116640,  72.9%
  90000 of  116640,  77.2%
  95000 of  116640,  81.4%
 100000 of  116640,  85.7%
 105000 of  116640,  90.0%
 110000 of  116640,  94.3%
 115000 of  116640,  98.6%
100% Done
    260.3 DEM/s
% Program caused arithmetic error: Floating divide by 0
% Program caused arithmetic error: Floating illegal operand

SSW  setup will include: <gen>

Type <sswidl> to start SSW IDL
--------------------------------------------------------
Running SSW, Last Updated: Wed Nov 2 22:22:51 GMT 2005
 
PROBLEMS? - e-mail TO: freeland@penumbra.nascom.nasa.gov
--------------------------------------------------------
IDL Version 8.5 (linux x86_64 m64). (c) 2015, Exelis Visual Information Solutions, Inc., a subsidiary of Harris Corporation.
Installation number: 401801-1.
Licensed for use by: Rice University

Executing SSW IDL_STARTUP for: GEN
Executing SSW IDL_STARTUP for: SITE
% Compiled module: SSW_PATH.
% Compiled module: SSW_INSTRUMENTS.
% Compiled module: WC_WHERE.
% Compiled module: PATHFIX.
% Compiled module: UNIQO.
% Compiled module: STRJUSTIFY.
% Compiled module: UNIQ.
% Compiled module: DEFAULT.
% Compiled module: PRSTR.
Including Paths:
 ---------------------------------
| $SSW/vobs/gen/idl               |
| $SSW/vobs/ontology/idl/jsoc     |
| $SSW/vobs/ontology/idl/gen_temp |
| $SSW/vobs/ontology/idl          |
 ---------------------------------
% SSW_PATH: Number of paths changed from 88 to 92
% Compiled module: FIND_FILE.
% Compiled module: READ_SDO.
% Compiled module: GET_FITS_NEXTEND.
% Compiled module: FITS_OPEN.
% Compiled module: SXPAR.
% Compiled module: GETTOK.
% Compiled module: VALID_NUM.
% Compiled module: SXDELPAR.
% Compiled module: REQUIRED_TAGS.
% Compiled module: MREADFITS_SHM.
% Compiled module: FILE_SIZE.
% Compiled module: WHERE_PATTERN.
% Compiled module: LAST_NELEM.
% Compiled module: ALPHAGEN.
% Compiled module: DELVARX.
% Compiled module: DELVARX2.
% Compiled module: DESTROY.
% Compiled module: IS_LENDIAN.
% Compiled module: GET_NBYTES.
% Compiled module: SWAP_ENDIAN_INPLACE.
% Compiled module: RELTIME.
% Compiled module: UT_TIME.
% Compiled module: UT_DIFF.
% Compiled module: SYSTIM.
% Compiled module: ANYTIM.
% Compiled module: IS_STRUCT.
% Compiled module: CHECKVAR.
% Compiled module: STR_LASTPOS.
% Compiled module: STR2UTC.
% Compiled module: BOOST_ARRAY.
% Compiled module: UTC2INT.
% Compiled module: TAG_EXIST.
% Compiled module: DATE2MJD.
% Compiled module: CHECK_INT_TIME.
% Compiled module: GET_LEAP_SEC.
% Compiled module: UTIME2STR.
% Compiled module: GETUTBASE.
% Compiled module: GETUT.
% Compiled module: INT2EX.
% Compiled module: DAYCNV.
% Compiled module: EX2INT.
% Compiled module: JDCNV.
% Compiled module: INT2SEC.
% Compiled module: ANYTIM2INTS.
% Compiled module: TIMSTR2EX.
% Compiled module: CHECK_TIME.
% Compiled module: FMT_TIM.
% Compiled module: GT_DAY.
% Compiled module: GT_TIME.
% Compiled module: ATIME.
% Compiled module: FCHECK.
% Compiled module: F_ATIME.
% Compiled module: TIMEGRID.
% Compiled module: CONCAT_STRUCT.
% Compiled module: INT2SECARR.
% Compiled module: MREADFITS_HEADER.
% Compiled module: HEADFITS.
% Compiled module: FXPOSIT.
% Compiled module: MRD_HREAD.
% Compiled module: FITSHEAD2STRUCT.
% Compiled module: FXADDPAR.
% Compiled module: FXPARPOS.
% Compiled module: FXPAR.
% Compiled module: FMT_TAG.
% Compiled module: DETABIFY.
% Compiled module: STRARRCOMPRESS.
% Compiled module: STRSPECIAL.
% Compiled module: STRLASTCHAR.
% Compiled module: SSW_STRSPLIT.
% Compiled module: ID_ESC.
% Compiled module: ISVALID.
% Compiled module: ID_ESC_INIT.
% Compiled module: SSW_UNIQ.
% Compiled module: ID_UNESC.
% Compiled module: MRD_STRUCT.
% Compiled module: IS_NUMBER.
% Compiled module: IS_NUMBER2.
% Compiled module: TAG_INDEX.
% Compiled module: STRMIDS.
% Compiled module: GT_TAGVAL.
% Compiled module: STR_TAGVAL.
% Compiled module: ALL_VALS.
% Compiled module: UPDATE_HISTORY.
% Compiled module: GET_CALLER.
% Compiled module: STR2NUMBER.
% Compiled module: BOOST_TAG.
% Compiled module: STRUP.
% Compiled module: GET_TAG_INDEX.
% Compiled module: IDL_RELEASE.
% Compiled module: REP_TAG_VALUE.
% Compiled module: REM_TAG.
% Compiled module: ADD_TAG.
% Compiled module: LAST_ITEM.
% Compiled module: COPY_VAR.
% Compiled module: COMP_FITS_CEN.
% Compiled module: REPLICATE2.
% Program caused arithmetic error: Floating underflow
% Compiled module: DN2DEM_POS_NB.
% Compiled module: GET_EDGES.
% Compiled module: EDGE_PRODUCTS.
% Compiled module: INTERPOL.
% Compiled module: DEMMAP_POS.
      0 of  116640,   0.0%
% Compiled module: DEM_INV_GSVDCSQ.
% Compiled module: DEM_INV_REG_PARAMETER_MAP.
   5000 of  116640,   4.3%
  10000 of  116640,   8.6%
  15000 of  116640,  12.9%
  20000 of  116640,  17.1%
  25000 of  116640,  21.4%
  30000 of  116640,  25.7%
  35000 of  116640,  30.0%
  40000 of  116640,  34.3%
  45000 of  116640,  38.6%
  50000 of  116640,  42.9%
  55000 of  116640,  47.2%
  60000 of  116640,  51.4%
  65000 of  116640,  55.7%
  70000 of  116640,  60.0%
  75000 of  116640,  64.3%
  80000 of  116640,  68.6%
  85000 of  116640,  72.9%
  90000 of  116640,  77.2%
  95000 of  116640,  81.4%
 100000 of  116640,  85.7%
 105000 of  116640,  90.0%
 110000 of  116640,  94.3%
 115000 of  116640,  98.6%
100% Done
    298.8 DEM/s
% Program caused arithmetic error: Floating divide by 0
% Program caused arithmetic error: Floating illegal operand

SSW  setup will include: <gen>

Type <sswidl> to start SSW IDL
--------------------------------------------------------
Running SSW, Last Updated: Wed Nov 2 22:22:51 GMT 2005
 
PROBLEMS? - e-mail TO: freeland@penumbra.nascom.nasa.gov
--------------------------------------------------------
IDL Version 8.5 (linux x86_64 m64). (c) 2015, Exelis Visual Information Solutions, Inc., a subsidiary of Harris Corporation.
Installation number: 401801-1.
Licensed for use by: Rice University

Executing SSW IDL_STARTUP for: GEN
Executing SSW IDL_STARTUP for: SITE
% Compiled module: SSW_PATH.
% Compiled module: SSW_INSTRUMENTS.
% Compiled module: WC_WHERE.
% Compiled module: PATHFIX.
% Compiled module: UNIQO.
% Compiled module: STRJUSTIFY.
% Compiled module: UNIQ.
% Compiled module: DEFAULT.
% Compiled module: PRSTR.
Including Paths:
 ---------------------------------
| $SSW/vobs/gen/idl               |
| $SSW/vobs/ontology/idl/jsoc     |
| $SSW/vobs/ontology/idl/gen_temp |
| $SSW/vobs/ontology/idl          |
 ---------------------------------
% SSW_PATH: Number of paths changed from 88 to 92
% Compiled module: FIND_FILE.
% Compiled module: READ_SDO.
% Compiled module: GET_FITS_NEXTEND.
% Compiled module: FITS_OPEN.
% Compiled module: SXPAR.
% Compiled module: GETTOK.
% Compiled module: VALID_NUM.
% Compiled module: SXDELPAR.
% Compiled module: REQUIRED_TAGS.
% Compiled module: MREADFITS_SHM.
% Compiled module: FILE_SIZE.
% Compiled module: WHERE_PATTERN.
% Compiled module: LAST_NELEM.
% Compiled module: ALPHAGEN.
% Compiled module: DELVARX.
% Compiled module: DELVARX2.
% Compiled module: DESTROY.
% Compiled module: IS_LENDIAN.
% Compiled module: GET_NBYTES.
% Compiled module: SWAP_ENDIAN_INPLACE.
% Compiled module: RELTIME.
% Compiled module: UT_TIME.
% Compiled module: UT_DIFF.
% Compiled module: SYSTIM.
% Compiled module: ANYTIM.
% Compiled module: IS_STRUCT.
% Compiled module: CHECKVAR.
% Compiled module: STR_LASTPOS.
% Compiled module: STR2UTC.
% Compiled module: BOOST_ARRAY.
% Compiled module: UTC2INT.
% Compiled module: TAG_EXIST.
% Compiled module: DATE2MJD.
% Compiled module: CHECK_INT_TIME.
% Compiled module: GET_LEAP_SEC.
% Compiled module: UTIME2STR.
% Compiled module: GETUTBASE.
% Compiled module: GETUT.
% Compiled module: INT2EX.
% Compiled module: DAYCNV.
% Compiled module: EX2INT.
% Compiled module: JDCNV.
% Compiled module: INT2SEC.
% Compiled module: ANYTIM2INTS.
% Compiled module: TIMSTR2EX.
% Compiled module: CHECK_TIME.
% Compiled module: FMT_TIM.
% Compiled module: GT_DAY.
% Compiled module: GT_TIME.
% Compiled module: ATIME.
% Compiled module: FCHECK.
% Compiled module: F_ATIME.
% Compiled module: TIMEGRID.
% Compiled module: CONCAT_STRUCT.
% Compiled module: INT2SECARR.
% Compiled module: MREADFITS_HEADER.
% Compiled module: HEADFITS.
% Compiled module: FXPOSIT.
% Compiled module: MRD_HREAD.
% Compiled module: FITSHEAD2STRUCT.
% Compiled module: FXADDPAR.
% Compiled module: FXPARPOS.
% Compiled module: FXPAR.
% Compiled module: FMT_TAG.
% Compiled module: DETABIFY.
% Compiled module: STRARRCOMPRESS.
% Compiled module: STRSPECIAL.
% Compiled module: STRLASTCHAR.
% Compiled module: SSW_STRSPLIT.
% Compiled module: ID_ESC.
% Compiled module: ISVALID.
% Compiled module: ID_ESC_INIT.
% Compiled module: SSW_UNIQ.
% Compiled module: ID_UNESC.
% Compiled module: MRD_STRUCT.
% Compiled module: IS_NUMBER.
% Compiled module: IS_NUMBER2.
% Compiled module: TAG_INDEX.
% Compiled module: STRMIDS.
% Compiled module: GT_TAGVAL.
% Compiled module: STR_TAGVAL.
% Compiled module: ALL_VALS.
% Compiled module: UPDATE_HISTORY.
% Compiled module: GET_CALLER.
% Compiled module: STR2NUMBER.
% Compiled module: BOOST_TAG.
% Compiled module: STRUP.
% Compiled module: GET_TAG_INDEX.
% Compiled module: IDL_RELEASE.
% Compiled module: REP_TAG_VALUE.
% Compiled module: REM_TAG.
% Compiled module: ADD_TAG.
% Compiled module: LAST_ITEM.
% Compiled module: COPY_VAR.
% Compiled module: COMP_FITS_CEN.
% Compiled module: REPLICATE2.
% Program caused arithmetic error: Floating underflow
% Compiled module: DN2DEM_POS_NB.
% Compiled module: GET_EDGES.
% Compiled module: EDGE_PRODUCTS.
% Compiled module: INTERPOL.
% Compiled module: DEMMAP_POS.
      0 of  116640,   0.0%
   5000 of  116640,   4.3%
% Compiled module: DEM_INV_GSVDCSQ.
% Compiled module: DEM_INV_REG_PARAMETER_MAP.
  10000 of  116640,   8.6%
  15000 of  116640,  12.9%
  20000 of  116640,  17.1%
  25000 of  116640,  21.4%
  30000 of  116640,  25.7%
  35000 of  116640,  30.0%
  40000 of  116640,  34.3%
  45000 of  116640,  38.6%
  50000 of  116640,  42.9%
  55000 of  116640,  47.2%
  60000 of  116640,  51.4%
  65000 of  116640,  55.7%
  70000 of  116640,  60.0%
  75000 of  116640,  64.3%
  80000 of  116640,  68.6%
  85000 of  116640,  72.9%
  90000 of  116640,  77.2%
  95000 of  116640,  81.4%
 100000 of  116640,  85.7%
 105000 of  116640,  90.0%
 110000 of  116640,  94.3%
 115000 of  116640,  98.6%
100% Done
    343.3 DEM/s
% Program caused arithmetic error: Floating divide by 0
% Program caused arithmetic error: Floating illegal operand

In [64]:

    

foo = EMCube.restore('../data/em_cubes_demreg_tn750_t7500-12500.h5')


    

In [65]:

    

fig = plt.figure(figsize=(20,15))
plt.subplots_adjust(right=0.87)
cax = fig.add_axes([0.88, 0.12, 0.025, 0.75])
plt.subplots_adjust(hspace=0.1)
for i in range(foo.temperature_bin_edges.shape[0]-1):
    # apply a filter to the 
    tmp = foo[i].submap(u.Quantity([250,500],u.arcsec),u.Quantity([150,400],u.arcsec))
    #tmp.data = gaussian_filter(tmp.data,
    #                           eis.channels[0]['gaussian_width']['x'].value
    #                          )
    # set up axes properly and add plot
    ax = fig.add_subplot(6,5,i+1,projection=tmp)
    im = tmp.plot(axes=ax,
                  annotate=False,
                  cmap=matplotlib.cm.get_cmap('magma'),
                  norm=matplotlib.colors.SymLogNorm(1, vmin=1e25, vmax=1e29)
                 )
    # set title and labels
    ax.set_title(r'${t0:.2f}-{t1:.2f}$ {uni}'.format(t0=np.log10(tmp.meta['temp_a']),
                                                     t1=np.log10(tmp.meta['temp_b']),uni='K'))
    if i<25:
        ax.coords[0].set_ticklabel_visible(False)
    else:
        ax.set_xlabel(r'$x$ ({})'.format(u.Unit(tmp.meta['cunit1'])))
    if i%5==0:
        ax.set_ylabel(r'$y$ ({})'.format(u.Unit(tmp.meta['cunit2'])))
    else:
        ax.coords[1].set_ticklabel_visible(False)
cbar = fig.colorbar(im,cax=cax)


    

In [ ]: