<commit_before>
import fermipy

#def build_defaults():
#    path = os.path.join(fermipy.PACKAGE_ROOT,'config','defaults.yaml')
#    with open(path,'r') as f: config = yaml.load(f)

# Options for defining input data files
data = {
    'evfile'    : (None,'Input FT1 file.',str),
    'scfile'    : (None,'Input FT2 file.',str),
    'ltcube'    : (None,'Input LT cube file (optional).',str),
    }

# Options for data selection.
selection = {
    'emin'    : (None,'Minimum Energy (MeV)',float),
    'emax'    : (None,'Maximum Energy (MeV)',float),
    'logemin' : (None,'Minimum Energy (log10(MeV))',float),
    'logemax' : (None,'Maximum Energy (log10(MeV))',float),
    'tmin'    : (None,'Minimum time (MET).',int),
    'tmax'    : (None,'Maximum time (MET).',int),
    'zmax'    : (None,'Maximum zenith angle.',float),
    'evclass' : (None,'Event class selection.',int),
    'evtype'  : (None,'Event type selection.',int),
    'convtype': (None,'Conversion type selection.',int),
    'target'  : (None,'Choose an object on which to center the ROI.  '
                 'This option takes precendence over ra/dec.',str),
    'ra'      : (None,'',float),
    'dec'     : (None,'',float),
    'glat'    : (None,'',float),
    'glon'    : (None,'',float),
    'radius'  : (None,'',float),
    'filter'  : (None,'',str),
    'roicut'  : ('no','',str)
    }

# Options for ROI model.
model = {
    'src_radius'        :
        (None,'Set the maximum distance for inclusion of sources in the ROI '
         'model.  Selects all sources within a circle of this radius centered '
         'on the ROI.  If none then no selection is applied.  This selection '
         'will be ORed with sources passing the cut on src_roiwidth.',float),
    'src_roiwidth'        :
        (None,'Select sources within a box of RxR centered on the ROI.  If '
         'none then no cut is applied.',float),    
    'src_radius_roi'        :
        (None,'Half-width of the ROI selection.  This parameter can be used in lieu of src_roiwidth.',
         float),
    'isodiff'       : (None,'Set the isotropic template.',list),
    'galdiff'       : (None,'Set the galactic IEM mapcube.',list),
    'limbdiff'      : (None,'',list),
    'diffuse'       : (None,'',list),
    'sources'       : (None,'',list),
    'extdir'        : ('Extended_archive_v15','',str),
    'catalogs'      : (None,'',list),
    'min_ts'        : (None,'',float),
    'min_flux'      : (None,'',float),
    'remove_duplicates' : (False,'Remove duplicate catalog sources.',bool)
    }

# Options for configuring likelihood analysis
gtlike = {
    'irfs'          : (None,'',str),
    'edisp'         : (True,'',bool),
    'edisp_disable' : (None,'Provide a list of sources for which the edisp correction should be disabled.',list),
    'likelihood'    : ('binned','',str),
    'minbinsz'      : (0.05,'',float),
    'rfactor'       : (2,'',int),
    'convolve'      : (True,'',bool),
    'resample'      : (True,'',bool),
    'srcmap'        : (None,'',str),
    'bexpmap'       : (None,'',str),
    }

# Options for binning.
binning = {
    'projtype'   : ('WCS','',str),
    'proj'       : ('AIT','',str),
    'coordsys'   : ('CEL','',str),        
    'npix'       : 
    (None, 'Number of spatial bins.  If none this will be inferred from roiwidth '
     'and binsz.',int), 
    'roiwidth'  : (10.0,'Set the width of the ROI in degrees.  If both roiwidth and binsz are '
                    'given the roiwidth will be rounded up to be a multiple of binsz.',float),
    'binsz'      : (0.1,'Set the bin size in degrees.',float),
    'binsperdec' : (8,'Set the number of energy bins per decade.',float),
    'enumbins'   : (None,'Number of energy bins.  If none this will be inferred from energy '
                    'range and binsperdec parameter.',int),
    'hpx_ordering_scheme' : ('RING','HEALPix Ordering Scheme',str),
    'hpx_order'           : (10,'Order of the map (int between 0 and 12, included)',int),
    'hpx_ebin'            : (True,'Include energy binning',bool)
    }

# Options related to I/O and output file bookkeeping
fileio = {
    'outdir'       : (None,'Set the name of the output directory.',str),
    'scratchdir'   : ('/scratch','Set the path to the scratch directory.',str),
    'workdir'      : (None,'Override the working directory.',str),
    'logfile'      : (None,'',str),
    'savefits'     : (True,'Save intermediate FITS data products.',bool),
    'usescratch'   : (False,'Perform analysis in a temporary working directory.',bool),
    }

logging = {
    'chatter'     : (3,'Set the chatter parameter of the STs.',int),
    'verbosity'   : (3,'',int)
    }

# Options related to likelihood optimizer
optimizer = {
    'optimizer'   : 
    ('MINUIT','Set the optimization algorithm to use when maximizing the '
     'likelihood function.',str),
    'tol'              : (1E-4,'Set the optimizer tolerance.',float),
    'retries'          : (3,'Set the number of times to retry the fit.',int),
    'min_fit_quality'  : (3,'Set the minimum fit quality.',int),
    'verbosity'        : (0,'',int)
    }

# MC options
mc = { }

#
roiopt = {
    'npred_threshold'          : (1.0,'',float),
    'npred_frac'               : (0.95,'',float),
    'shape_ts_threshold'       : (100.0,'',float)
    }

#
residmap = {
    'models'                   : (None,'',list),
    }

#
tsmap = {
    'models'                   : (None,'',list),
    }

# Options for SED analysis
sed = {
    'bin_index'                : (2.0,'',float),
    'use_local_index'          : (False,'',bool)
    }

# Options for extension analysis
extension = {
    'spatial_model'            : ('GaussianSource','',str),
    'width'                    : (None,'',str),
    'width_min'                : (0.01,'',float),
    'width_max'                : (1.0,'',float),
    'width_nstep'              : (21,'',int),
    'save_templates'           : (False,'',bool),
    'fix_background'           : (False,'',bool),
    'save_model_map'           : (False,'',bool),    
    }

# Options for localization analysis
localize = {
    'nstep'                    : (10,'',int),
    'dtheta_max'               : (0.05,'',float),
    'update'                   : (False,'',bool)
    }

# Options for anlaysis
run = {
    'sed' : (None,'',list),
    'extension' : (None,'',list)
    }

# Options for plotting
plotting = {
    'erange' : (None,'',list),
    'format' : ('pdf','',str)
    }
<commit_msg>Switch back to PNG figures<commit_after>
import fermipy

#def build_defaults():
#    path = os.path.join(fermipy.PACKAGE_ROOT,'config','defaults.yaml')
#    with open(path,'r') as f: config = yaml.load(f)

# Options for defining input data files
data = {
    'evfile'    : (None,'Input FT1 file.',str),
    'scfile'    : (None,'Input FT2 file.',str),
    'ltcube'    : (None,'Input LT cube file (optional).',str),
    }

# Options for data selection.
selection = {
    'emin'    : (None,'Minimum Energy (MeV)',float),
    'emax'    : (None,'Maximum Energy (MeV)',float),
    'logemin' : (None,'Minimum Energy (log10(MeV))',float),
    'logemax' : (None,'Maximum Energy (log10(MeV))',float),
    'tmin'    : (None,'Minimum time (MET).',int),
    'tmax'    : (None,'Maximum time (MET).',int),
    'zmax'    : (None,'Maximum zenith angle.',float),
    'evclass' : (None,'Event class selection.',int),
    'evtype'  : (None,'Event type selection.',int),
    'convtype': (None,'Conversion type selection.',int),
    'target'  : (None,'Choose an object on which to center the ROI.  '
                 'This option takes precendence over ra/dec.',str),
    'ra'      : (None,'',float),
    'dec'     : (None,'',float),
    'glat'    : (None,'',float),
    'glon'    : (None,'',float),
    'radius'  : (None,'',float),
    'filter'  : (None,'',str),
    'roicut'  : ('no','',str)
    }

# Options for ROI model.
model = {
    'src_radius'        :
        (None,'Set the maximum distance for inclusion of sources in the ROI '
         'model.  Selects all sources within a circle of this radius centered '
         'on the ROI.  If none then no selection is applied.  This selection '
         'will be ORed with sources passing the cut on src_roiwidth.',float),
    'src_roiwidth'        :
        (None,'Select sources within a box of RxR centered on the ROI.  If '
         'none then no cut is applied.',float),    
    'src_radius_roi'        :
        (None,'Half-width of the ROI selection.  This parameter can be used in lieu of src_roiwidth.',
         float),
    'isodiff'       : (None,'Set the isotropic template.',list),
    'galdiff'       : (None,'Set the galactic IEM mapcube.',list),
    'limbdiff'      : (None,'',list),
    'diffuse'       : (None,'',list),
    'sources'       : (None,'',list),
    'extdir'        : ('Extended_archive_v15','',str),
    'catalogs'      : (None,'',list),
    'min_ts'        : (None,'',float),
    'min_flux'      : (None,'',float),
    'remove_duplicates' : (False,'Remove duplicate catalog sources.',bool)
    }

# Options for configuring likelihood analysis
gtlike = {
    'irfs'          : (None,'',str),
    'edisp'         : (True,'',bool),
    'edisp_disable' : (None,'Provide a list of sources for which the edisp correction should be disabled.',list),
    'likelihood'    : ('binned','',str),
    'minbinsz'      : (0.05,'',float),
    'rfactor'       : (2,'',int),
    'convolve'      : (True,'',bool),
    'resample'      : (True,'',bool),
    'srcmap'        : (None,'',str),
    'bexpmap'       : (None,'',str),
    }

# Options for binning.
binning = {
    'projtype'   : ('WCS','',str),
    'proj'       : ('AIT','',str),
    'coordsys'   : ('CEL','',str),        
    'npix'       : 
    (None, 'Number of spatial bins.  If none this will be inferred from roiwidth '
     'and binsz.',int), 
    'roiwidth'  : (10.0,'Set the width of the ROI in degrees.  If both roiwidth and binsz are '
                    'given the roiwidth will be rounded up to be a multiple of binsz.',float),
    'binsz'      : (0.1,'Set the bin size in degrees.',float),
    'binsperdec' : (8,'Set the number of energy bins per decade.',float),
    'enumbins'   : (None,'Number of energy bins.  If none this will be inferred from energy '
                    'range and binsperdec parameter.',int),
    'hpx_ordering_scheme' : ('RING','HEALPix Ordering Scheme',str),
    'hpx_order'           : (10,'Order of the map (int between 0 and 12, included)',int),
    'hpx_ebin'            : (True,'Include energy binning',bool)
    }

# Options related to I/O and output file bookkeeping
fileio = {
    'outdir'       : (None,'Set the name of the output directory.',str),
    'scratchdir'   : ('/scratch','Set the path to the scratch directory.',str),
    'workdir'      : (None,'Override the working directory.',str),
    'logfile'      : (None,'',str),
    'savefits'     : (True,'Save intermediate FITS data products.',bool),
    'usescratch'   : (False,'Perform analysis in a temporary working directory.',bool),
    }

logging = {
    'chatter'     : (3,'Set the chatter parameter of the STs.',int),
    'verbosity'   : (3,'',int)
    }

# Options related to likelihood optimizer
optimizer = {
    'optimizer'   : 
    ('MINUIT','Set the optimization algorithm to use when maximizing the '
     'likelihood function.',str),
    'tol'              : (1E-4,'Set the optimizer tolerance.',float),
    'retries'          : (3,'Set the number of times to retry the fit.',int),
    'min_fit_quality'  : (3,'Set the minimum fit quality.',int),
    'verbosity'        : (0,'',int)
    }

# MC options
mc = { }

#
roiopt = {
    'npred_threshold'          : (1.0,'',float),
    'npred_frac'               : (0.95,'',float),
    'shape_ts_threshold'       : (100.0,'',float)
    }

#
residmap = {
    'models'                   : (None,'',list),
    }

#
tsmap = {
    'models'                   : (None,'',list),
    }

# Options for SED analysis
sed = {
    'bin_index'                : (2.0,'',float),
    'use_local_index'          : (False,'',bool)
    }

# Options for extension analysis
extension = {
    'spatial_model'            : ('GaussianSource','',str),
    'width'                    : (None,'',str),
    'width_min'                : (0.01,'',float),
    'width_max'                : (1.0,'',float),
    'width_nstep'              : (21,'',int),
    'save_templates'           : (False,'',bool),
    'fix_background'           : (False,'',bool),
    'save_model_map'           : (False,'',bool),    
    }

# Options for localization analysis
localize = {
    'nstep'                    : (10,'',int),
    'dtheta_max'               : (0.05,'',float),
    'update'                   : (False,'',bool)
    }

# Options for anlaysis
run = {
    'sed' : (None,'',list),
    'extension' : (None,'',list)
    }

# Options for plotting
plotting = {
    'erange' : (None,'',list),
    'format' : ('png','',str)
    }

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