LICENSE.txt
MANIFEST.in
README.md
pyproject.toml
autoemxsp/__init__.py
autoemxsp/_custom_plotting.py
autoemxsp.egg-info/PKG-INFO
autoemxsp.egg-info/SOURCES.txt
autoemxsp.egg-info/dependency_links.txt
autoemxsp.egg-info/requires.txt
autoemxsp.egg-info/top_level.txt
autoemxsp/EM_driver/PhenomXL.py
autoemxsp/EM_driver/__init__.py
autoemxsp/Results/K-412_NISTstd_example/Comp_analysis_configs.json
autoemxsp/Results/K-412_NISTstd_example/Data.csv
autoemxsp/Results/K-412_NISTstd_example/NavCam_Ctape.png
autoemxsp/Results/K-412_NISTstd_example/Analysis/Clustering_info.json
autoemxsp/Results/K-412_NISTstd_example/Analysis/Clustering_plot.png
autoemxsp/Results/K-412_NISTstd_example/Analysis/Clusters.csv
autoemxsp/Results/K-412_NISTstd_example/Analysis/Compositions.csv
autoemxsp/Results/K-412_NISTstd_example/Analysis/Silhouette_plot.png
autoemxsp/Results/Wulfenite_example/Comp_analysis_configs.json
autoemxsp/Results/Wulfenite_example/Data.csv
autoemxsp/Results/Wulfenite_example/NavCam_Ctape.png
autoemxsp/Results/Wulfenite_example/Analysis/Clustering_info.json
autoemxsp/Results/Wulfenite_example/Analysis/Clustering_plot.png
autoemxsp/Results/Wulfenite_example/Analysis/Clusters.csv
autoemxsp/Results/Wulfenite_example/Analysis/Compositions.csv
autoemxsp/XSp_calibs/__init__.py
autoemxsp/XSp_calibs/Calibration scripts/Peak_gaussian_sigma_param.py
autoemxsp/XSp_calibs/Microscopes/PhenomXL/EDS_Stds_15keV.json
autoemxsp/XSp_calibs/Microscopes/PhenomXL/XS_calibrations.py
autoemxsp/XSp_calibs/Microscopes/PhenomXL/detector_efficiency.msa
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/20250925_19h08m_detector_channel_params_calibs.json
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/20251218_09h58m_detector_channel_params_calibs.json
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20250923_18h06m/Al/Comp_analysis_configs.json
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20250923_18h06m/Al/Std_measurements.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20250923_18h06m/Al/Std_measurements_20250923_18h06m_50kcnts.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20250923_18h06m/Al/Std_results_point_20250923_18h06m_50kcnts.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20250923_18h06m/Cu/Comp_analysis_configs.json
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20250923_18h06m/Cu/Std_measurements.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20250923_18h06m/Cu/Std_measurements_20250923_17h54m_50kcnts.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20250923_18h06m/Cu/Std_results_point_20250923_17h54m_50kcnts.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20250923_18h06m/Fitting output/20250925_19h02m_Cu_FitParamVals.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20250923_18h06m/Fitting output/20250925_19h05m_Al_FitParamVals.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20251218_09h26m/Al/Comp_analysis_configs.json
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20251218_09h26m/Al/EM_metadata.msa
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20251218_09h26m/Al/Std_measurements.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20251218_09h26m/Al/Std_measurements_20251218_09h26m_50kcnts.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20251218_09h26m/Cu/Comp_analysis_configs.json
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20251218_09h26m/Cu/EM_metadata.msa
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20251218_09h26m/Cu/Std_measurements.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20251218_09h26m/Cu/Std_measurements_20251218_09h26m_50kcnts.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20251218_09h26m/Fitting output/20251218_09h42m_Cu_FitParamVals.csv
autoemxsp/XSp_calibs/Microscopes/PhenomXL/Detector_channel_params_calibs/SDD calibrations/20251218_09h26m/Fitting output/20251218_09h45m_Al_FitParamVals.csv
autoemxsp/config/__init__.py
autoemxsp/config/classes.py
autoemxsp/config/defaults.py
autoemxsp/core/EMXSp_composition_analyser.py
autoemxsp/core/EM_controller.py
autoemxsp/core/EM_particle_finder.py
autoemxsp/core/XSp_fitter.py
autoemxsp/core/XSp_quantifier.py
autoemxsp/core/__init__.py
autoemxsp/core/particle_segmentation_models/Rettenberger2024.py
autoemxsp/core/particle_segmentation_models/__init__.py
autoemxsp/core/particle_segmentation_models/example_figure.tiff
autoemxsp/core/particle_segmentation_models/segmentation_model_template.py
autoemxsp/data/__init__.py
autoemxsp/data/Xray_absorption_coeffs/__init__.py
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ac.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ag.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/al.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ar.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/as.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/at.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/au.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/b.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ba.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/be.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/bi.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/br.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/c.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ca.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/cd.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ce.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/cl.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/co.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/cr.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/cs.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/cu.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/dy.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/er.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/eu.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/f.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/fe.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/fr.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ga.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/gd.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ge.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/h.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/he.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/hf.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/hg.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ho.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/i.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/in.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ir.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/k.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/kr.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/la.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/li.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/lu.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/mg.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/mn.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/mo.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/n.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/na.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/nb.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/nd.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ne.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ni.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/o.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/os.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/p.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/pa.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/pb.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/pd.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/pm.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/po.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/pr.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/pt.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ra.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/rb.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/re.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/read.me
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/rh.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/rn.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ru.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/s.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/sb.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/sc.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/se.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/si.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/sm.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/sn.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/sr.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ta.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/tb.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/tc.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/te.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/th.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/ti.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/tl.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/tm.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/u.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/v.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/w.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/xe.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/y.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/yb.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/zn.nff
autoemxsp/data/Xray_absorption_coeffs/Xray_scattering_factors/zr.nff
autoemxsp/data/Xray_lines/LineEnergies.csv
autoemxsp/data/Xray_lines/LineWeights.csv
autoemxsp/data/Xray_lines/LineWeights_mod.xlsx
autoemxsp/data/Xray_lines/LineWeights_original.csv
autoemxsp/data/Xray_lines/Link to NIST X-ray absorption coefficients.rtf
autoemxsp/data/Xray_lines/Modifications.rtf
autoemxsp/data/Xray_lines/__init__.py
autoemxsp/data/Xray_lines/lines_nomenclature_conversion.json
autoemxsp/data/Xray_lines/make_line_nomenc_conv_file.py
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Ba_Mz weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Bi_Ma weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Co_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Fe_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Hf_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Hf_Ma weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/In_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/In_Mz weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/La_Mz weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Mn_Ka weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Mn_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Mo_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Ni_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Pb_Ma weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Sc_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Se_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Si_Ka weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Ta_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Ta_Ma weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Ti_La weights calibration updated.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/Ti_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/V_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/W_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/~$Hf_La weights calibration.xlsx
autoemxsp/data/Xray_lines/Xray_weights_calibrations/~$W_La weights calibration.xlsx
autoemxsp/data/mean_ionization_potentials/MeanIonizationPotentials.csv
autoemxsp/data/mean_ionization_potentials/__init__.py
autoemxsp/runners/Analyze_Sample.py
autoemxsp/runners/Batch_Acquire_Experimental_Stds.py
autoemxsp/runners/Batch_Acquire_and_Analyze.py
autoemxsp/runners/Batch_Fit_Spectra.py
autoemxsp/runners/Batch_Quantify_and_Analyze.py
autoemxsp/runners/Collect_Particle_Statistics.py
autoemxsp/runners/Fit_and_Quantify_Spectrum.py
autoemxsp/runners/Fit_and_Quantify_Spectrum_fromDatacsv.py
autoemxsp/runners/__init__.py
autoemxsp/scripts/Collect_Particle_Statistics.py
autoemxsp/scripts/Fit_Quant_Single_AutoEMXSp_Spectrum.py
autoemxsp/scripts/Fit_Quant_Single_MSA_Spectrum.py
autoemxsp/scripts/Process_Particle_Stats_Files.py
autoemxsp/scripts/Run_Acquisition_Quant_Analysis.py
autoemxsp/scripts/Run_Analysis.py
autoemxsp/scripts/Run_Experimental_Standard_Collection.py
autoemxsp/scripts/Run_Quantification_Analysis.py
autoemxsp/scripts/Run_SDD_Calibration.py
autoemxsp/scripts/input/Example_spectrum.msa
autoemxsp/scripts/input/example_particle_stats/Comp_analysis_configs.json
autoemxsp/scripts/input/example_particle_stats/example_particle_stats_Par_size_distribution_hist.png
autoemxsp/scripts/input/example_particle_stats/example_particle_stats_Par_size_distribution_hist_processed.png
autoemxsp/scripts/input/example_particle_stats/example_particle_stats_Par_size_stats.csv
autoemxsp/scripts/input/example_particle_stats/example_particle_stats_Par_size_stats_processed.csv
autoemxsp/scripts/input/example_particle_stats/example_particle_stats_Par_sizes.csv
autoemxsp/scripts/input/example_particle_stats/example_particle_stats_Par_sizes_processed.csv
autoemxsp/scripts/input/example_particle_stats/SEM images/L10M80N10_frAR55_Rettenberger2024_mask.jpg
autoemxsp/scripts/input/example_particle_stats/SEM images/L10M80N10_frAR55_par_mask.jpg
autoemxsp/scripts/input/example_particle_stats/SEM images/L10M80N10_frAR55_particles.jpg
autoemxsp/utils/__init__.py
autoemxsp/utils/constants.py
autoemxsp/utils/helper.py