PEP8-fication.

pcigale/__init__.py

@@ -3,8 +3,6 @@
 # Licensed under the CeCILL-v2 licence - see Licence_CeCILL_V2-en.txt
 # Author: Yannick Roehlly
 
-__version__ = "0.1-alpha"
-
 import argparse
 import multiprocessing as mp
 import sys
@@ -13,6 +11,8 @@ from .session.configuration import Configuration
 from .analysis_modules import get_module as get_analysis_module
 from .analysis_modules.utils import ParametersHandler
 
+__version__ = "0.1-alpha"
+
 
 def init(config):
     "Create a blank configuration file."

pcigale/analysis_modules/__init__.py

@@ -100,7 +100,7 @@ class AnalysisModule(object):
         # value and that are not in the parameters dictionary, we add them
         # with their default value.
         for key in self.parameter_list:
-            if (not key in parameters) and (
+            if (key not in parameters) and (
                     self.parameter_list[key][2] is not None):
                 parameters[key] = self.parameter_list[key][2]
 
@@ -124,7 +124,7 @@ class AnalysisModule(object):
             raise KeyError("The parameters passed are different from the "
                            "expected one." + message)
 
-        #We do the actual processing
+        # We do the actual processing
         self._process(data_file, column_list, creation_modules,
                       creation_modules_params, parameters)
 
@@ -196,27 +196,27 @@ def adjust_errors(flux, error, tolerance, lim_flag, default_error=0.1,
     # because if lim_flag is False, we process upper limits as no-data.
     #
     # Replace errors below tolerance by the default one.
-    mask_noerror = np.logical_and(flux>tolerance, error<-9990.)
+    mask_noerror = np.logical_and(flux > tolerance, error < -9990.)
     error[mask_noerror] = (default_error * flux[mask_noerror])
 
     mask_limflag = np.logical_and.reduce(
-                       (flux>tolerance, error>=-9990., error<tolerance))
+                       (flux > tolerance, error >= -9990., error < tolerance))
 
     # Replace upper limits by no data if lim_flag==False
     if not lim_flag:
         flux[mask_limflag] = -9999.
         error[mask_limflag] = -9999.
 
-    mask_ok = np.logical_and(flux>tolerance, error>tolerance)
+    mask_ok = np.logical_and(flux > tolerance, error > tolerance)
 
     # Add the systematic error.
-    error[mask_ok] = np.sqrt(np.square(error[mask_ok]) +
-                    np.square(flux[mask_ok] * systematic_deviation))
+    error[mask_ok] = np.sqrt(error[mask_ok]**2 +
+                             (flux[mask_ok]*systematic_deviation)**2)
     return error
 
 
-def complete_obs_table(obs_table, used_columns, filter_list, tolerance, lim_flag,
-                       default_error=0.1, systematic_deviation=0.1):
+def complete_obs_table(obs_table, used_columns, filter_list, tolerance,
+                       lim_flag, default_error=0.1, systematic_deviation=0.1):
     """Complete the observation table
 
     For each filter:

pcigale/analysis_modules/pdf_analysis/__init__.py

@@ -227,55 +227,59 @@ class PdfAnalysis(AnalysisModule):
 
         print("\nSaving results...")
 
-        save_table_analysis('analysis_results.txt', obs_table['id'], 
-                            analysed_variables, analysed_averages, analysed_std)
-        save_table_best('best_models.txt', obs_table['id'], best_chi2, 
-                     best_chi2_red, best_parameters, best_fluxes, filters, info)
+        save_table_analysis('analysis_results.txt', obs_table['id'],
+                            analysed_variables, analysed_averages,
+                            analysed_std)
+        save_table_best('best_models.txt', obs_table['id'], best_chi2,
+                        best_chi2_red, best_parameters, best_fluxes, filters,
+                        info)
 
         if mock_flag is True:
 
             print("\nMock analysis...")
 
             obs_fluxes = np.array([obs_table[name] for name in filters]).T
-            obs_errors = np.array([obs_table[name + "_err"] for name in filters]).T
+            obs_errors = np.array([obs_table[name + "_err"] for name in
+                                   filters]).T
             mock_fluxes = np.empty_like(obs_fluxes)
             mock_errors = np.empty_like(obs_errors)
             bestmod_fluxes = np.ctypeslib.as_array(best_fluxes[0])
             bestmod_fluxes = bestmod_fluxes.reshape(best_fluxes[1])
 
-            wdata =   np.where((obs_fluxes > 0.)&(obs_errors > 0.))
-            wlim =    np.where((obs_fluxes > 0.)&
-                               (obs_errors >= -9990.)&(obs_errors < 0.))
-            wnodata = np.where((obs_fluxes <= -9990.)&(obs_errors <= -9990.))
-            
+            wdata = np.where((obs_fluxes > 0.) & (obs_errors > 0.))
+            wlim = np.where((obs_fluxes > 0.) & (obs_errors >= -9990.) &
+                            (obs_errors < 0.))
+            wnodata = np.where((obs_fluxes <= -9990.) &
+                               (obs_errors <= -9990.))
+
             mock_fluxes[wdata] = np.random.normal(
-                           bestmod_fluxes[wdata], 
-                           obs_errors[wdata], 
+                           bestmod_fluxes[wdata],
+                           obs_errors[wdata],
                            len(bestmod_fluxes[wdata]))
             mock_errors[wdata] = obs_errors[wdata]
-                
+
             mock_fluxes[wlim] = obs_fluxes[wlim]
             mock_errors[wlim] = obs_errors[wlim]
 
             mock_fluxes[wnodata] = obs_fluxes[wnodata]
             mock_errors[wnodata] = obs_errors[wnodata]
-                
+
             mock_table = obs_table.copy()
             mock_table['id'] = obs_table['id']
             mock_table['redshift'] = obs_table['redshift']
-            
+
             indx = 0
             for name in filters:
                 mock_table[name] = mock_fluxes[:, indx]
                 mock_table[name + "_err"] = mock_errors[:, indx]
                 indx += 1
-                                       
+
             phase = 2
             initargs = (params, filters, analysed_variables, model_redshifts,
-                    model_fluxes, model_variables, time.time(),
-                    mp.Value('i', 0), analysed_averages, analysed_std,
-                    best_fluxes, best_parameters, best_chi2,
-                    best_chi2_red, save, lim_flag, n_obs, phase)
+                        model_fluxes, model_variables, time.time(),
+                        mp.Value('i', 0), analysed_averages, analysed_std,
+                        best_fluxes, best_parameters, best_chi2,
+                        best_chi2_red, save, lim_flag, n_obs, phase)
             if cores == 1:  # Do not create a new process
                 init_worker_analysis(*initargs)
                 for idx, mock in enumerate(mock_table):
@@ -287,11 +291,12 @@ class PdfAnalysis(AnalysisModule):
 
             print("\nSaving results...")
 
-            save_table_analysis('analysis_mock_results.txt', mock_table['id'], 
-                  analysed_variables, analysed_averages, analysed_std)
-            save_table_best('best_mock_models.txt', mock_table['id'], 
-                        best_chi2, best_chi2_red,
-                        best_parameters, best_fluxes, filters, info)
+            save_table_analysis('analysis_mock_results.txt', mock_table['id'],
+                                analysed_variables, analysed_averages,
+                                analysed_std)
+            save_table_best('best_mock_models.txt', mock_table['id'],
+                            best_chi2, best_chi2_red, best_parameters,
+                            best_fluxes, filters, info)
 
         print("Run completed!")
 

pcigale/analysis_modules/pdf_analysis/utils.py

@@ -6,16 +6,18 @@
 # Author: Yannick Roehlly & Médéric Boquien
 
 from astropy import log
-log.setLevel('ERROR')
 from astropy.table import Table, Column
 import numpy as np
 from scipy.stats import scoreatpercentile
 
 from ..utils import OUT_DIR
 
+log.setLevel('ERROR')
+
 # Number of points in the PDF
 PDF_NB_POINTS = 1000
 
+
 def save_best_sed(obsid, sed, norm):
     """Save the best SED to a VO table.
 
@@ -129,8 +131,8 @@ def save_table_analysis(filename, obsid, analysed_variables, analysed_averages,
                        delimiter=None)
 
 
-def save_table_best(filename, obsid, chi2, chi2_red, variables, fluxes, filters,
-                    info_keys):
+def save_table_best(filename, obsid, chi2, chi2_red, variables, fluxes,
+                    filters, info_keys):
     """Save the values corresponding to the best fit
 
     Parameters
@@ -176,7 +178,7 @@ def save_table_best(filename, obsid, chi2, chi2_red, variables, fluxes, filters,
         column = Column(np_fluxes[:, index], name=name, unit='mJy')
         best_model_table.add_column(column)
 
-    best_model_table.write(OUT_DIR + filename,format='ascii.fixed_width',
+    best_model_table.write(OUT_DIR + filename, format='ascii.fixed_width',
                            delimiter=None)
 
 
@@ -212,8 +214,8 @@ def dchi2_over_ds2(s):
     # The mask "lim" selects the filter(s) for which upper limits are given
     # i.e., when obs_fluxes is >=0. and obs_errors = 9990 <= obs_errors < 0.
 
-    wlim = np.where((gbl_obs_errors >= -9990.)&(gbl_obs_errors < 0.))
-    wdata = np.where(gbl_obs_errors>=0.)
+    wlim = np.where((gbl_obs_errors >= -9990.) & (gbl_obs_errors < 0.))
+    wdata = np.where(gbl_obs_errors >= 0.)
 
     mod_fluxes_data = gbl_mod_fluxes[wdata]
     mod_fluxes_lim = gbl_mod_fluxes[wlim]
@@ -246,6 +248,7 @@ def dchi2_over_ds2(s):
 
     return func
 
+
 def analyse_chi2(chi2):
     """Function to analyse the best chi^2 and find out whether what fraction of
     objects seem to be overconstrainted.
@@ -260,5 +263,5 @@ def analyse_chi2(chi2):
     # If low values of reduced chi^2, it means that the data are overfitted
     # Errors might be under-estimated or not enough valid data.
     print("\n{}% of the objects have chi^2_red~0 and {}% chi^2_red<0.5"
-        .format(np.round((chi2_red < 1e-12).sum()/chi2_red.size, 1),
-                np.round((chi2_red < 0.5).sum()/chi2_red.size, 1)))
+          .format(np.round((chi2_red < 1e-12).sum()/chi2_red.size, 1),
+                  np.round((chi2_red < 0.5).sum()/chi2_red.size, 1)))

pcigale/analysis_modules/pdf_analysis/workers.py

@@ -20,6 +20,7 @@ from ...warehouse import SedWarehouse
 # moments computation.
 MIN_PROBABILITY = 1e-20
 
+
 def init_sed(params, filters, analysed, redshifts, fluxes, variables,
              t_begin, n_computed):
     """Initializer of the pool of processes. It is mostly used to convert
@@ -70,6 +71,7 @@ def init_sed(params, filters, analysed, redshifts, fluxes, variables,
 
     gbl_warehouse = SedWarehouse()
 
+
 def init_analysis(params, filters, analysed, redshifts, fluxes, variables,
                   t_begin, n_computed, analysed_averages, analysed_std,
                   best_fluxes, best_parameters, best_chi2, best_chi2_red, save,
@@ -150,6 +152,7 @@ def init_analysis(params, filters, analysed, redshifts, fluxes, variables,
     gbl_n_obs = n_obs
     gbl_phase = phase
 
+
 def sed(idx):
     """Worker process to retrieve a SED and affect the relevant data to shared
     RawArrays.
@@ -219,7 +222,7 @@ def analysis(idx, obs):
     # We pick the indices of the models with closest redshift assuming we have
     # limited the number of decimals (usually set to 2 decimals).
     wz = np.where(gbl_w_redshifts[gbl_redshifts[np.abs(obs['redshift'] -
-                                               gbl_redshifts).argmin()]])
+                                                       gbl_redshifts).argmin()]])
 
     # We only keep model with fluxes >= -90. If not => no data
     # Probably because age > age of the universe (see function sed(idx) above).
@@ -242,7 +245,7 @@ def analysis(idx, obs):
     # 2) s/he puts False in the boolean lim_flag
     # and the limits are processed as no-data below.
 
-    lim_flag = gbl_lim_flag and np.any((obs_errors >= -9990.)&
+    lim_flag = gbl_lim_flag and np.any((obs_errors >= -9990.) &
                                        (obs_errors < tolerance))
 
     # Normalisation factor to be applied to a model fluxes to best fit
@@ -256,8 +259,8 @@ def analysis(idx, obs):
 
     if lim_flag is True:
         for imod in range(len(model_fluxes)):
-            norm_facts[imod] = optimize.newton(dchi2_over_ds2, norm_facts[imod],
-                                               tol=1e-16,
+            norm_facts[imod] = optimize.newton(dchi2_over_ds2,
+                                               norm_facts[imod], tol=1e-16,
                                                args=(obs_fluxes, obs_errors,
                                                      model_fluxes[imod, :]))
     model_fluxes *= norm_facts[:, np.newaxis]
@@ -299,28 +302,28 @@ def analysis(idx, obs):
         print("No suitable model found for the object {}. One possible origin "
               "is that models are older than the Universe.".format(obs['id']))
     else:
-        # We select only models that have at least 0.1% of the probability of the
-        # best model to reproduce the observations. It helps eliminating very bad
-        # models.
-        maxchi2 = st.chi2.isf(st.chi2.sf(np.min(chi2_), obs_fluxes.size-1)*1e-3,
-                            obs_fluxes.size-1)
+        # We select only models that have at least 0.1% of the probability of
+        # the best model to reproduce the observations. It helps eliminating
+        # very bad models.
+        maxchi2 = st.chi2.isf(st.chi2.sf(np.min(chi2_), obs_fluxes.size-1) *
+                              1e-3, obs_fluxes.size-1)
         wlikely = np.where(chi2_ < maxchi2)
         # We use the exponential probability associated with the χ² as
         # likelihood function.
         likelihood = np.exp(-chi2_[wlikely]/2)
 
-        best_index = chi2_.argmin()        
+        best_index = chi2_.argmin()
 
         # We compute once again the best sed to obtain its info
         global gbl_previous_idx
         if gbl_previous_idx > -1:
             gbl_warehouse.partial_clear_cache(
                 gbl_params.index_module_changed(gbl_previous_idx,
-                                            wz[0][wvalid[0][best_index]]))
+                                                wz[0][wvalid[0][best_index]]))
         gbl_previous_idx = wz[0][wvalid[0][best_index]]
 
         sed = gbl_warehouse.get_sed(gbl_params.modules,
-                                gbl_params.from_index([wz[0][wvalid[0][best_index]]]))
+                                    gbl_params.from_index([wz[0][wvalid[0][best_index]]]))
 
         # We correct the mass-dependent parameters
         for key in sed.mass_proportional_info:
@@ -367,12 +370,12 @@ def analysis(idx, obs):
                                     np.square(pdf_x-analysed_averages[i]) * pdf_prob
                                            ) / np.sum(pdf_prob)
                                          )
-                analysed_std[i] = max(0.05*analysed_averages[i], analysed_std[i])
+                analysed_std[i] = max(0.05*analysed_averages[i],
+                                      analysed_std[i])
 
                 var[:, i] = np.linspace(min_hist[i], max_hist[i], Npdf)
                 pdf[:, i] = np.interp(var[:, i], pdf_x, pdf_prob)
 
-
         # TODO Merge with above computation after checking it is fine with a MA
         gbl_analysed_averages[idx, :] = analysed_averages
         gbl_analysed_std[idx, :] = analysed_std
@@ -388,8 +391,8 @@ def analysis(idx, obs):
             if gbl_save['best_sed']:
                 save_best_sed(obs['id'], sed, norm_facts[best_index])
             if gbl_save['chi2']:
-                save_chi2(obs['id'], gbl_analysed_variables, model_variables, chi2_ /
-                      obs_fluxes.size)
+                save_chi2(obs['id'], gbl_analysed_variables, model_variables,
+                          chi2_, obs_fluxes.size)
             if gbl_save['pdf']:
                 save_pdf(obs['id'], gbl_analysed_variables, var, pdf)
 
@@ -398,7 +401,6 @@ def analysis(idx, obs):
         n_computed = gbl_n_computed.value
     t_elapsed = time.time() - gbl_t_begin
     print("{}/{} objects analysed in {} seconds ({} objects/s)".
-            format(n_computed, gbl_n_obs, np.around(t_elapsed, decimals=1),
-                    np.around(n_computed/t_elapsed, decimals=2)),
-            end="\n" if idx == gbl_n_obs-1 else "\r")
-
+          format(n_computed, gbl_n_obs, np.around(t_elapsed, decimals=1),
+                 np.around(n_computed/t_elapsed, decimals=2)),
+          end="\n" if idx == gbl_n_obs-1 else "\r")

pcigale/analysis_modules/savefluxes/__init__.py

@@ -47,8 +47,8 @@ class SaveFluxes(AnalysisModule):
     parameter_list = OrderedDict([
         ("output_file", (
             "string",
-            "Name of the output file that contains the parameters of the model(s) "
-            "and the flux densities in the bands",
+            "Name of the output file that contains the parameters of the "
+            "model(s) and the flux densities in the bands",
             "computed_fluxes.txt"
         )),
         ("save_sed", (
@@ -128,7 +128,7 @@ class SaveFluxes(AnalysisModule):
                         (n_params, n_filters))
         model_parameters = (RawArray(ctypes.c_double,
                                      n_params * n_info),
-                        (n_params, n_info))
+                            (n_params, n_info))
 
         initargs = (params, filters, save_sed, model_fluxes,
                     model_parameters, time.time(), mp.Value('i', 0))

pcigale/analysis_modules/savefluxes/workers.py

@@ -13,6 +13,7 @@ from ...warehouse import SedWarehouse
 
 from ..utils import OUT_DIR
 
+
 def init_fluxes(params, filters, save_sed, fluxes, info, t_begin, n_computed):
     """Initializer of the pool of processes. It is mostly used to convert
     RawArrays into numpy arrays. The latter are defined as global variables to
@@ -78,7 +79,7 @@ def fluxes(idx):
     sed = gbl_warehouse.get_sed(gbl_params.modules,
                                 gbl_params.from_index(idx))
 
-    if gbl_save_sed == True:
+    if gbl_save_sed is True:
         sed.to_votable(OUT_DIR + "{}_best_model.xml".format(idx))
 
     if 'sfh.age' in sed.info and sed.info['sfh.age'] > sed.info['universe.age']:

pcigale/analysis_modules/utils.py

@@ -15,9 +15,10 @@ import shutil
 
 import numpy as np
 from astropy import log
-log.setLevel('ERROR')
 from astropy.table import Table, Column
 
+log.setLevel('ERROR')
+
 # Directory where the output files are stored
 OUT_DIR = "out/"
 
@@ -71,8 +72,8 @@ class ParametersHandler(object):
                     isinstance(value, str)):
                 dictionary[key] = [value]
 
-        # We use itertools.product to make all the possible combinations from the
-        # value lists.
+        # We use itertools.product to make all the possible combinations from
+        # the value lists.
         key_list = dictionary.keys()
         value_array_list = [dictionary[key] for key in key_list]
         combination_list = [collections.OrderedDict(zip(key_list, combination))

pcigale/creation_modules/__init__.py

@@ -40,7 +40,7 @@ def complete_parameters(given_parameters, parameter_list):
     """
     # Complete the given parameters with default values when needed.
     for key in parameter_list:
-        if (not key in given_parameters) and (
+        if (key not in given_parameters) and (
                 parameter_list[key][2] is not None):
             given_parameters[key] = parameter_list[key][2]
     # Check parameter consistency between the parameter list and the given

pcigale/creation_modules/bc03.py

@@ -51,9 +51,9 @@ class BC03(CreationModule):
         ("sfr", "Instantaneous Star Formation Rate in solar mass per year, "
                 "at the age of the galaxy."),
         ('sfr10Myrs', 'Average SFR in the last 10 Myr (default) of the '
-                        'galaxy history.'),
+                      'galaxy history.'),
         ('sfr100Myrs', 'Average SFR in the last 100 Myr (default) of the '
-                        'galaxy history.'),
+                       'galaxy history.'),
         ("ssp_m_star", "Total mass in stars in Solar mass."),
         ("ssp_m_gas", "Mass returned to the ISM by evolved stars in Solar "
                       "mass."),

pcigale/creation_modules/dale2014.py

@@ -31,8 +31,8 @@ class Dale2014(CreationModule):
     parameter_list = OrderedDict([
         ('fracAGN', (
             'float',
-            "AGN fraction "
-            "[it is not recommended to combine this AGN emission with that of Fritz et al. (2006)]",
+            "AGN fraction. It is not recommended to combine this AGN emission "
+            "with the of Fritz et al. (2006) models.",
             0.0
         )),
         ('alpha', (
@@ -85,7 +85,7 @@ class Dale2014(CreationModule):
         luminosity = sed.info['dust.luminosity']
 
         frac_agn = self.parameters["fracAGN"]
-        
+
         if frac_agn < 1.:
             L_AGN = luminosity * (1./(1.-frac_agn) - 1.)
         else:
@@ -100,7 +100,7 @@ class Dale2014(CreationModule):
                              luminosity * self.model_sb.lumin)
         if frac_agn != 0.:
             sed.add_contribution('agn', self.model_quasar.wave,
-                                L_AGN * self.model_quasar.lumin)
+                                 L_AGN * self.model_quasar.lumin)
 
 # CreationModule to be returned by get_module
 Module = Dale2014

pcigale/creation_modules/dl2007.py

@@ -40,8 +40,8 @@ class DL2007(CreationModule):
         ('umin', (
             'float',
             "Minimum radiation field. Possible values are: 0.10, 0.15, 0.20, "
-            "0.30, 0.40, 0.50, 0.70, 0.80, 1.00, 1.20, 1.50, 2.00, 2.50, 3.00, "
-            "4.00, 5.00, 7.00, 8.00, 10.0, 12.0, 15.0, 20.0, 25.0.",
+            "0.30, 0.40, 0.50, 0.70, 0.80, 1.00, 1.20, 1.50, 2.00, 2.50, "
+            "3.00, 4.00, 5.00, 7.00, 8.00, 10.0, 12.0, 15.0, 20.0, 25.0.",
             1.0
         )),
         ('umax', (

pcigale/creation_modules/dustatt_calzleit.py

@@ -41,9 +41,9 @@ def k_calzetti2000(wavelength):
 
     # Attenuation between 120 nm and 630 nm
     mask = (wavelength < 630)
-    result[mask] = 2.659 * (-2.156 + 1.509e3 / wavelength[mask]
-                            - 0.198e6 / wavelength[mask] ** 2
-                            + 0.011e9 / wavelength[mask] ** 3) + 4.05
+    result[mask] = 2.659 * (-2.156 + 1.509e3 / wavelength[mask] -
+                            0.198e6 / wavelength[mask] ** 2 +
+                            0.011e9 / wavelength[mask] ** 3) + 4.05
 
     # Attenuation between 630 nm and 2200 nm
     mask = (wavelength >= 630)
@@ -71,9 +71,9 @@ def k_leitherer2002(wavelength):
 
     """
     wavelength = np.array(wavelength)
-    result = (5.472 + 0.671e3 / wavelength
-              - 9.218e3 / wavelength ** 2
-              + 2.620e6 / wavelength ** 3)
+    result = (5.472 + 0.671e3 / wavelength -
+              9.218e3 / wavelength ** 2 +
+              2.620e6 / wavelength ** 3)
 
     return result
 
@@ -98,8 +98,8 @@ def uv_bump(wavelength, central_wave, gamma, ebump):
 
     """
     return (ebump * wavelength ** 2 * gamma ** 2 /
-            ((wavelength ** 2 - central_wave ** 2) ** 2
-             + wavelength ** 2 * gamma ** 2))
+            ((wavelength ** 2 - central_wave ** 2) ** 2 +
+             wavelength ** 2 * gamma ** 2))
 
 
 def power_law(wavelength, delta):
@@ -261,20 +261,20 @@ class CalzLeit(CreationModule):
         powerlaw_slope = float(self.parameters["powerlaw_slope"])
 
         # Fλ fluxes (only from continuum) in each filter before attenuation.
-        flux_noatt = {filt:sed.compute_fnu(filt) for filt in self.filter_list}
+        flux_noatt = {filt: sed.compute_fnu(filt) for filt in self.filter_list}
 
         # Compute attenuation curve
         if self.sel_attenuation is None:
             self.sel_attenuation = a_vs_ebv(wavelength, uv_bump_wavelength,
-                                   uv_bump_width, uv_bump_amplitude,
-                                   powerlaw_slope)
+                                            uv_bump_width, uv_bump_amplitude,
+                                            powerlaw_slope)
 
         attenuation_total = 0.
         for contrib in list(sed.contribution_names):
             age = contrib.split('.')[-1].split('_')[-1]
             luminosity = sed.get_lumin_contribution(contrib)
             attenuated_luminosity = (luminosity * 10 **
-                                    (ebvs[age] * self.sel_attenuation / -2.5))
+                                     (ebvs[age] * self.sel_attenuation / -2.5))
             attenuation_spectrum = attenuated_luminosity - luminosity
             # We integrate the amount of luminosity attenuated (-1 because the
             # spectrum is negative).
@@ -296,7 +296,7 @@ class CalzLeit(CreationModule):
             sed.add_info("dust.luminosity", attenuation_total, True)
 
         # Fλ fluxes (only from continuum) in each filter after attenuation.
-        flux_att = {filt:sed.compute_fnu(filt) for filt in self.filter_list}
+        flux_att = {filt: sed.compute_fnu(filt) for filt in self.filter_list}
 
         # Attenuation in each filter
         for filt in self.filter_list:

pcigale/creation_modules/dustatt_powerlaw.py

@@ -57,8 +57,8 @@ def uv_bump(wavelength, central_wave, gamma, ebump):
 
     """
     return (ebump * wavelength ** 2 * gamma ** 2 /
-            ((wavelength ** 2 - central_wave ** 2) ** 2
-             + wavelength ** 2 * gamma ** 2))
+            ((wavelength ** 2 - central_wave ** 2) ** 2 +
+             wavelength ** 2 * gamma ** 2))
 
 
 def alambda_av(wavelength, delta, bump_wave, bump_width, bump_ampl):
@@ -97,7 +97,7 @@ def alambda_av(wavelength, delta, bump_wave, bump_width, bump_ampl):
 class PowerLawAtt(CreationModule):
     """Power law attenuation module
 
-    This module computes the attenuation using a power law 
+    This module computes the attenuation using a power law
     as defined in Charlot and Fall (2000).
 
     The attenuation can be computed on the whole spectrum or on a specific
@@ -185,20 +185,20 @@ class PowerLawAtt(CreationModule):
         powerlaw_slope = float(self.parameters["powerlaw_slope"])
 
         # Fλ fluxes (only from continuum)) in each filter before attenuation.
-        flux_noatt = {filt:sed.compute_fnu(filt) for filt in self.filter_list}
+        flux_noatt = {filt: sed.compute_fnu(filt) for filt in self.filter_list}
 
         # Compute attenuation curve
         if self.sel_attenuation is None:
             self.sel_attenuation = alambda_av(wavelength, powerlaw_slope,
-                                     uv_bump_wavelength, uv_bump_width,
-                                     uv_bump_amplitude)
-  
+                                              uv_bump_wavelength,
+                                              uv_bump_width, uv_bump_amplitude)
+
         attenuation_total = 0.
         for contrib in list(sed.contribution_names):
             age = contrib.split('.')[-1].split('_')[-1]
             luminosity = sed.get_lumin_contribution(contrib)
             attenuated_luminosity = (luminosity * 10 **
-                                    (av[age] * self.sel_attenuation / -2.5))
+                                     (av[age] * self.sel_attenuation / -2.5))
             attenuation_spectrum = attenuated_luminosity - luminosity
             # We integrate the amount of luminosity attenuated (-1 because the
             # spectrum is negative).
@@ -206,9 +206,9 @@ class PowerLawAtt(CreationModule):
             attenuation_total += attenuation
 
             sed.add_module(self.name, self.parameters)
-            sed.add_info("attenuation.Av.stellar"+
+            sed.add_info("attenuation.Av.stellar" +
                          contrib[contrib.find('_'):], av[age])
-            sed.add_info("attenuation.stellar"+
+            sed.add_info("attenuation.stellar" +
                          contrib[contrib.find('_'):], attenuation, True)
             sed.add_contribution("attenuation." + contrib, wavelength,