Add the 2020 python scripts to obtain Sphinx Gallery output

tardis-setups/2020/README.rst

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+Year 2020 Results
+==================
+
+Output of configuartion files uploaded in the year 2020.

tardis-setups/2020/plot_16d.py

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+"""
+Williamson et al. (2020) Figure 2 t_explosion=16 days
+==========================
+
+
+Article: Williamson, Marc, Kerzendorf, Wolfgang, Modjaz, Maryam 2021, ApJ,
+“Modeling Type Ic Supernovae with TARDIS: Hidden Helium in SN 1994I?” (`ADS Link`_).
+
+Original Input Files: `YAML`_, `CSVY`_
+
+Original Atomic Dataset: Data missing
+
+Original Spectra: Data missing
+
+Notes: Please note that the spectra obtained below is obtained by using a slightly
+modified configuration file. This is done to ensure that the spectra can be
+obtained using the computers hosted by us.
+
+.. _ADS Link: https://ui.adsabs.harvard.edu/abs/2021ApJ...908..150W
+.. _YAML: https://github.com/tardis-sn/tardis-setups/blob/master/2020/2020_williamson_94I/code_comp_setups/16d.yml
+.. _CSVY: https://github.com/tardis-sn/tardis-setups/blob/master/2020/2020_williamson_94I/code_comp_setups/hach_exact_csvy_16d.csvy
+"""
+
+
+from tardis import run_tardis
+from tardis.io.config_reader import Configuration
+from tardis.io.atom_data.util import download_atom_data
+import matplotlib.pyplot as plt
+
+import sys
+
+sys.path.append("../")
+from setup_utils import config_modifier
+
+# %%
+# Comment this line if you do not need to download the dataset.
+
+
+download_atom_data("kurucz_cd23_chianti_H_He")
+
+# %%
+conf = Configuration.from_yaml(
+    "../../2020/2020_williamson_94I/code_comp_setups/16d.yml"
+)
+
+# %%
+# Note: Here the configuration is slightly modified to allow
+# the configuration file on a computer with lower configuration.
+
+conf = config_modifier(conf)
+# %%
+sim = run_tardis(conf)
+
+
+spectrum = sim.runner.spectrum
+spectrum_virtual = sim.runner.spectrum_virtual
+spectrum_integrated = sim.runner.spectrum_integrated
+
+plt.figure(figsize=(10, 6.5))
+
+spectrum.plot(label="Normal packets")
+spectrum_virtual.plot(label="Virtual packets")
+spectrum_integrated.plot(label="Formal integral")
+
+plt.xlim(500, 9000)
+plt.title("TARDIS example model spectrum")
+plt.xlabel("Wavelength [$\AA$]")
+plt.ylabel("Luminosity density [erg/s/$\AA$]")
+plt.legend()
+plt.show()
+

tardis-setups/2020/plot_22d.py

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+"""
+Williamson et al. (2020) Figure 2 t_explosion=22 days
+==========================
+
+
+Article: Williamson, Marc, Kerzendorf, Wolfgang, Modjaz, Maryam 2021, ApJ,
+“Modeling Type Ic Supernovae with TARDIS: Hidden Helium in SN 1994I?” (`ADS Link`_).
+
+Original Input Files: `YAML`_, `CSVY`_
+
+Original Atomic Dataset: Data missing
+
+Original Spectra: Data missing
+
+Notes: Please note that the spectra obtained below is obtained by using a slightly
+modified configuration file. This is done to ensure that the spectra can be
+obtained using the computers hosted by us.
+
+.. _ADS Link: https://ui.adsabs.harvard.edu/abs/2021ApJ...908..150W
+.. _YAML: https://github.com/tardis-sn/tardis-setups/blob/master/2020/2020_williamson_94I/code_comp_setups/22d.yml
+.. _CSVY: https://github.com/tardis-sn/tardis-setups/blob/master/2020/2020_williamson_94I/code_comp_setups/hach_exact_csvy_22d.csvy
+"""
+
+from tardis import run_tardis
+from tardis.io.config_reader import Configuration
+from tardis.io.atom_data.util import download_atom_data
+import matplotlib.pyplot as plt
+
+import sys
+
+sys.path.append("../")
+from setup_utils import config_modifier
+
+# %%
+# Uncomment this line if you need to download the dataset.
+
+
+download_atom_data("kurucz_cd23_chianti_H_He")
+
+# %%
+# Runs the example
+
+conf = Configuration.from_yaml(
+    "../../2020/2020_williamson_94I/code_comp_setups/22d.yml"
+)
+conf = config_modifier(conf)
+# %%
+sim = run_tardis(conf)
+
+
+spectrum = sim.runner.spectrum
+spectrum_virtual = sim.runner.spectrum_virtual
+spectrum_integrated = sim.runner.spectrum_integrated
+
+plt.figure(figsize=(10, 6.5))
+
+spectrum.plot(label="Normal packets")
+spectrum_virtual.plot(label="Virtual packets")
+spectrum_integrated.plot(label="Formal integral")
+
+plt.xlim(500, 9000)
+plt.title("TARDIS example model spectrum")
+plt.xlabel("Wavelength [$\AA$]")
+plt.ylabel("Luminosity density [erg/s/$\AA$]")
+plt.legend()
+plt.show()

tardis-setups/2020/plot_22d_he_01.py

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+"""
+Williamson et al. (2020) Figure 3 g He=0.01M⊙
+==========================
+
+
+Article: Williamson, Marc, Kerzendorf, Wolfgang, Modjaz, Maryam 2021, ApJ,
+“Modeling Type Ic Supernovae with TARDIS: Hidden Helium in SN 1994I?” (`ADS Link`_).
+
+Original Input Files: `YAML`_, `CSVY`_
+
+Original Atomic Dataset: Data missing
+
+Original Spectra: Data missing
+
+Notes: Please note that the spectra obtained below is obtained by using a slightly
+modified configuration file. This is done to ensure that the spectra can be
+obtained using the computers hosted by us.
+
+.. _ADS Link: https://ui.adsabs.harvard.edu/abs/2021ApJ...908..150W
+.. _YAML: https://github.com/tardis-sn/tardis-setups/blob/master/2020/2020_williamson_94I/he_setups/22d_he_01.yml
+.. _CSVY: https://github.com/tardis-sn/tardis-setups/blob/master/2020/2020_williamson_94I/he_setups/22d_He_0.01.csvy
+"""
+
+
+from tardis import run_tardis
+from tardis.io.config_reader import Configuration
+from tardis.io.atom_data.util import download_atom_data
+import matplotlib.pyplot as plt
+
+import sys
+
+sys.path.append("../")
+from setup_utils import config_modifier
+
+# %%
+# Uncomment this line if you need to download the dataset.
+
+
+download_atom_data("kurucz_cd23_chianti_H_He")
+
+# %%
+# Runs the example
+
+conf = Configuration.from_yaml("../../2020/2020_williamson_94I/he_setups/22d_he_01.yml")
+conf = config_modifier(conf)
+# %%
+sim = run_tardis(conf)
+
+
+spectrum = sim.runner.spectrum
+spectrum_virtual = sim.runner.spectrum_virtual
+spectrum_integrated = sim.runner.spectrum_integrated
+
+plt.figure(figsize=(10, 6.5))
+
+spectrum.plot(label="Normal packets")
+spectrum_virtual.plot(label="Virtual packets")
+spectrum_integrated.plot(label="Formal integral")
+
+plt.xlim(500, 9000)
+plt.title("TARDIS example model spectrum")
+plt.xlabel("Wavelength [$\AA$]")
+plt.ylabel("Luminosity density [erg/s/$\AA$]")
+plt.legend()
+plt.show()

tardis-setups/2020/plot_22d_he_05.py

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+"""
+Williamson et al. (2020) Figure 3 g He=0.05M⊙
+==========================
+
+
+Article: Williamson, Marc, Kerzendorf, Wolfgang, Modjaz, Maryam 2021, ApJ,
+“Modeling Type Ic Supernovae with TARDIS: Hidden Helium in SN 1994I?” (`ADS Link`_).
+
+Original Input Files: `YAML`_, `CSVY`_
+
+Original Atomic Dataset: Data missing
+
+Original Spectra: Data missing
+
+Notes: Please note that the spectra obtained below is obtained by using a slightly
+modified configuration file. This is done to ensure that the spectra can be
+obtained using the computers hosted by us.
+
+.. _ADS Link: https://ui.adsabs.harvard.edu/abs/2021ApJ...908..150W
+.. _YAML: https://github.com/tardis-sn/tardis-setups/blob/master/2020/2020_williamson_94I/he_setups/22d_he_05.yml
+.. _CSVY: https://github.com/tardis-sn/tardis-setups/blob/master/2020/2020_williamson_94I/he_setups/22d_He_0.05.csvy
+"""
+
+
+from tardis import run_tardis
+from tardis.io.config_reader import Configuration
+from tardis.io.atom_data.util import download_atom_data
+import matplotlib.pyplot as plt
+
+import sys
+
+sys.path.append("../")
+from setup_utils import config_modifier
+
+# %%
+# Uncomment this line if you need to download the dataset.
+
+
+download_atom_data("kurucz_cd23_chianti_H_He")
+
+# %%
+# Runs the example
+
+conf = Configuration.from_yaml("../../2020/2020_williamson_94I/he_setups/22d_he_05.yml")
+conf = config_modifier(conf)
+# %%
+sim = run_tardis(conf)
+
+
+spectrum = sim.runner.spectrum
+spectrum_virtual = sim.runner.spectrum_virtual
+spectrum_integrated = sim.runner.spectrum_integrated
+
+plt.figure(figsize=(10, 6.5))
+
+spectrum.plot(label="Normal packets")
+spectrum_virtual.plot(label="Virtual packets")
+spectrum_integrated.plot(label="Formal integral")
+
+plt.xlim(500, 9000)
+plt.title("TARDIS example model spectrum")
+plt.xlabel("Wavelength [$\AA$]")
+plt.ylabel("Luminosity density [erg/s/$\AA$]")
+plt.legend()
+plt.show()

tardis-setups/2020/plot_22d_he_10.py

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+"""
+Williamson et al. (2020) Figure 3 g He=0.10M⊙
+==========================
+
+
+Article: Williamson, Marc, Kerzendorf, Wolfgang, Modjaz, Maryam 2021, ApJ,
+“Modeling Type Ic Supernovae with TARDIS: Hidden Helium in SN 1994I?” (`ADS Link`_).
+
+Original Input Files: `YAML`_, `CSVY`_
+
+Original Atomic Dataset: Data missing
+
+Original Spectra: Data missing
+
+Notes: Please note that the spectra obtained below is obtained by using a slightly
+modified configuration file. This is done to ensure that the spectra can be
+obtained using the computers hosted by us.
+
+.. _ADS Link: https://ui.adsabs.harvard.edu/abs/2021ApJ...908..150W
+.. _YAML: https://github.com/tardis-sn/tardis-setups/blob/master/2020/2020_williamson_94I/he_setups/22d_he_10.yml
+.. _CSVY: https://github.com/tardis-sn/tardis-setups/blob/master/2020/2020_williamson_94I/he_setups/22d_He_0.10.csvy
+"""
+
+
+from tardis import run_tardis
+from tardis.io.config_reader import Configuration
+from tardis.io.atom_data.util import download_atom_data
+import matplotlib.pyplot as plt
+
+import sys
+
+sys.path.append("../")
+from setup_utils import config_modifier
+
+# %%
+# Uncomment this line if you need to download the dataset.
+
+
+download_atom_data("kurucz_cd23_chianti_H_He")
+
+# %%
+# Runs the example
+
+conf = Configuration.from_yaml("../../2020/2020_williamson_94I/he_setups/22d_he_10.yml")
+conf = config_modifier(conf)
+# %%
+sim = run_tardis(conf)
+
+
+spectrum = sim.runner.spectrum
+spectrum_virtual = sim.runner.spectrum_virtual
+spectrum_integrated = sim.runner.spectrum_integrated
+
+plt.figure(figsize=(10, 6.5))
+
+spectrum.plot(label="Normal packets")
+spectrum_virtual.plot(label="Virtual packets")
+spectrum_integrated.plot(label="Formal integral")
+
+plt.xlim(500, 9000)
+plt.title("TARDIS example model spectrum")
+plt.xlabel("Wavelength [$\AA$]")
+plt.ylabel("Luminosity density [erg/s/$\AA$]")
+plt.legend()
+plt.show()