species v0.7.0

• Added support for Python 3.11 and dropped support for Python 3.8
• Added a check in ReadColorMagnitude for selecting an incorrect filter name that is not part of a photometric library
• Retrieving free abundances that vary with altitude using AtmosphericRetrieval
• Included FitEvolution for estimating ages and masses from luminosities
• Changed use of interp2d to RegularGridInterpolator
• Optimization in CompareSpectra so it runs faster
• Added plot_abundances function to plot_retrieval module
• Added the res_mode and lbl_opacity_sampling parameters to AtmosphericRetrieval
• Changed lbl_species parameter of AtmosphericRetrieval to ccf_species
• Added lbl_opacity_sampling parameter to ReadRadtrans
• Generalized the implementation of the mean_molecular_weight function
• Changed photometric uncertainty inflation in FitModel to relative to the uncertainties instead of relative to the flux
• Changed weights parameter in FitModel to apply_weights and improved its functionality
• Added convert_units_plot function to plot_util
• Capital sensitive unit conversion with convert_units function
• Added inc_abund parameter to plot_posterior
• Added units parameter to add_object
• Added extra_param parameter to plot_grid_statistic
• Added plot_model_spectra to plot_comparison module
• Maintenance of plot_comparison functions
• Updated dependency versions, documentation, and docstrings
• A lot of small improvements and maintenance!

species v0.6.0

• The calibration spectrum of Vega has been updated to the latest version from STScI CALSPEC
• Added vega_mag parameter to the configuration file
• Refactored the data.vega module
• Added optional zero_point parameter to SyntheticPhotometry
• The zp_flux parameter of magnitude_to_flux is set to deprecated
• Improved CompareSpectra functionalities
• Added add_custom_model to Database for adding manual grid
• Support for fitting vsin(i) and RV parameters with FitModel
• Refactored the ReadIsochrone class
• Added get_photometry and get_spectrum methods to ReadIsochrone
• Support for non-self-consistent coupling with atmospheric models in ReadIsochrone
• Added extra_param parameter to several methods of ReadIsochrone
• Using pooch for downloading grids of model spectra
• Support for using ATMO isochrones and grids of model spectra
• Added ext_filter parameter to FitModel and convert_to_av function to dust_util
• Remove NaN fluxes when calculating synthetic photometry from spectrum
• Check for NaNs when sampling the uncertainty on a synthetic flux
• Improved use of field_range parameter in plot_color_color and plot_color_magnitude
• Additional attributes in SynphotBox
• All plot functions return the Figure object such that manual adjustments are possible
• Added radius attribute to IsochroneBox and CoolingBox
• Added return_box parameter to get_flux and get_magnitude in ReadModel
• Multiple smaller improvements and bug fixes
• Updated documentation, tutorials, and docstrings
• Overall maintenance and code style improvements

species v0.5.5

• Added the add_accretion method to Database for adding the accretion coefficients (see Aoyama et al. 2021), including the extrapolation from Marleau & Aoyama (2022).
• Feature in EmissionLine for converting hydrogen line luminosities in accretion luminosities (see updated tutorial)
• Support for the clear and cloudy model spectra from Saumon & Marley (2008), to be added with the tags 'saumon2008-clear' and 'saumon2008-cloudy'
• Support for the grid of model spectra from Petrus et al. (2023), to be added with the tag 'petrus2023'
• Safe extraction of TAR files (thanks to @TrellixVulnTeam)
• Added envelope parameter to plot_pt_profile and plot_spectrum
• Added create_color_magnitude and create_color_color methods to ReadModel
• Support in plot_color_magnitude and plot_color_color for output from ReadModel
• Refactored working with companion data and added the companion_data.json file to the repository (see updated tutorial)
• Started implementing pooch for downloading files
• Added spectra of GQ Lup B to companion_spectra
• Added inc_model_name parameter to plot_spectrum
• Added get_condensation_curve function to retrieval_util
• Updated documentation, docstrings, and tutorials
• Minor maintenance and improvements to code style

species v0.5.4

• Support for Saumon & Marley (2008), Baraffe et al. (2015), and NextGen isochrones
• Added get_cooling_curve, get_filters, get_mass, and get_radius methods to ReadIsochrone
• Ignore parameters in ReadModel that are not mandatory
• Bug fix with reading the Sonora Bobcat evolutionary models
• Support for Mg2SiO4 cloud species in AtmosphericRetrieval
• Added grid_hspace parameter to plot_spectrum
• Added get_magnitude method to ReadRadtrans
• Support for rad_vel and vsini parameters in ReadRadtrans
• Added inc_log_mass parameter to plot_posterior
• Notebook tutorial for ReadIsochrone
• Minor maintenance and improvements to code and documentation

species v0.5.3

• Support for BT-Dusty model spectra (add_model('bt-dusty'))
• Support for BT-Settl isochrones (add_isochrones('bt-settl'))
• The integrate_spectrum method is added to ReadModel for integrating the bolometric luminosity
• The param_inc and object_type parameters are added to the plot_posterior function
• Several enhancements for handling calibration spectra
• Some code maintenance and improvements in the documentation and tutorials

species v0.5.2

• Several enhancements with the isochrone functionalities
• Support for Sonora Bobcat isochrones (add_isochrones('sonora'))
• Use of the parallax parameter in addition to distance (e.g. in add_object, add_companion, SyntheticPhotometry)
• The analysis routines (e.g. FitModel, EmissionLine, AtmosphericRetrieval) use by default the parallax as free parameter with a Gaussian prior
• Removed the run_mcmc (i.e. using emcee) method in FitModel, because it was no longer maintained and it is recommended to use the nested sampling routines
• Support for Koester white dwarf spectra (for calibration purpose)
• Options for retrieving parametrized cloud opacities with AtmosphericRetrieval
• Included the interp_method parameter in the configuration file for setting the method for the grid interpolation
• Improvements with the labels in various plots and the font style
• Many minor enhancements, maintenance, and updated tutorials and documentation

species v0.5.1

• Fixed issue with the prior of distance when using FitModel.run_ultranest
• Enhancement with the integrated autocorrelation time that is calculated in Database.add_samples
• The plot_filename parameters in EmissionLine can be set to None to show instead of save a plot
• The default zorder is only added to the plot_kwargs dictionaries in plot_spectrum if not already included
• Updated notebook tutorials
• Style improvements and minor maintenance
• Updated setup.py

species v0.5.0

• Framework for free retrievals with petitRADTRANS in the AtmosphericRetrieval class
• Notebook tutorials for free retrievals and reading companion data
• Changed the co parameter to c_o_ratio
• Added list_filters method to ReadObject
• Support for fitting blended stars/companions with FitModel
• Photometric error inflation per instrument
• Added synthetic_photometry method to ModelBox
• Possibility to show a plot instead of writing to a file
• Refactoring of add_model
• Support for Sonora model spectra
• Added available_models to Database for details about the atmospheric models
• Added reduced chi2 calculation to get_residuals
• Added get_evidence method to Database
• Added support for Python 3.10 and removed support for Python 3.7
• Updated documentation, docstrings, and dependency versions
• Many small new features, enhancements, and bug fixes!

species v0.4.0

• T/Y spectra from Morley et al. (2012)
• Libraries with empirical low-gravity spectra
• Companions spectra in data.companions
• Improvements in comparison tools for spectra
• Some additional parameters and minor functionalities
• Code maintenance and a few minor bug fixes
• Dropped support for Python 3.6 and added support for Python 3.9
• Changed CI from Travis to Github Actions

species v0.3.6

• Functionalities for the analysis of emission lines (see EmissionLine and the notebook tutorial).
• Update in data.filters to comply with the change on the SVO website regarding the detector type.
• The wavel_resample parameter was added to Database.get_mcmc_spectra and ReadPlanck.get_spectrum.
• The phot_type parameter was added to Database.get_mcmc_photometry.
• The smooth_spectrum and resample_spectrum methods were added to ModelBox.
• The read_util.gaussian_spectrum function was added.
• Stellar and companion properties were added to data.companions.
• Functionalities for comparing a spectrum with a grid of model spectra (see CompareSpectra.compare_model, Database.get_compare_sample, and plot_grid_statistic).
• Some refactoring in ReadModel for improved readability.
• A number of smaller improvements to the code and documentation.