IamMuhammadZeeshan commited on about 3 hours ago

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ca3d92c

1 Parent(s): 51e9fe8

updated code format: h5 posteriors and reports

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Files changed (42) hide show

.gitignore +2 -0
constants.json +0 -65
data_cfg.json +3 -3
f_sampler.json +0 -37
figs/autocorrelation_plots.html +0 -0
figs/autocovariance_plots.html +0 -0
figs/chain_0.png +0 -3
figs/chain_1.png +0 -3
figs/chain_2.png +0 -3
figs/chain_3.png +0 -3
figs/chain_4.png +0 -3
figs/chain_5.png +0 -3
figs/chain_6.png +0 -3
figs/chain_7.png +0 -3
figs/chain_8.png +0 -3
figs/chain_9.png +0 -3
figs/chains.png +0 -3
figs/effective_sample_size.html +7 -0
figs/gelman_rubin_diagnostic.html +7 -0
figs/mean_autocorrelation_plot.html +0 -0
figs/mean_autocovariance_plot.html +0 -0
figs/samples.png +0 -3
numpyro_inference/chain_2.dat → figs/trace_plots.html +0 -0
logs/o4a.log +0 -0
logs/o4a_reproduce_spin_mag_tilt.log +0 -0
nf_samples_mapping.json +0 -50
nohup.out +0 -0
sampler_cfg.json → numpyro_cfg.json +8 -6
numpyro_inference/chain_0.dat +0 -0
numpyro_inference/chain_1.dat +0 -0
numpyro_inference/chain_3.dat +0 -0
numpyro_inference/chain_4.dat +0 -0
numpyro_inference/chain_5.dat +0 -0
numpyro_inference/chain_6.dat +0 -0
numpyro_inference/chain_7.dat +0 -0
numpyro_inference/chain_8.dat +0 -0
numpyro_inference/chain_9.dat +0 -0
physical_rates.py +74 -0
plots.sh +0 -35
pmean.json +1 -1
prior.json +45 -69
run.sh +7 -8

.gitignore ADDED Viewed

	@@ -0,0 +1,2 @@


1	+ *.hdf5
2	+ *.h5

constants.json DELETED Viewed

@@ -1,65 +0,0 @@
-{
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-    "a_zeta_g_0": 0.0,
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-    "a_1_comp2_scale_bpl_0": 1.0,
-    "a_2_comp1_high_g_0": 1.0,
-    "a_2_comp1_high_g_1": 1.0,
-    "a_2_comp1_high_bpl_0": 1.0,
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-    "cos_tilt_1_minimum_bpl_0": -1.0,
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-    "cos_tilt_1_minimum_g_1": -1.0,
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-    "cos_tilt_2_minimum_g_0": -1.0,
-    "cos_tilt_2_minimum_g_1": -1.0,
-    "redshift_z_max_g_0": 2.3,
-    "redshift_z_max_g_1": 2.3,
-    "redshift_z_max_bpl_0": 2.3,
-    "N_bpl": 1,
-    "N_g": 2,
-    "use_beta_spin_magnitude": false,
-    "use_spin_magnitude_mixture": true,
-    "use_chi_eff_mixture": false,
-    "use_skew_normal_chi_eff": false,
-    "use_truncated_normal_chi_p": false,
-    "use_tilt": true,
-    "use_eccentricity_mixture": false,
-    "use_eccentricity_powerlaw": false,
-    "use_redshift": true,
-    "m1_high_g_0": 300.0,
-    "m1_high_g_1": 300.0,
-    "m1max_bpl_0": 300.0
-}

data_cfg.json CHANGED Viewed

@@ -1,7 +1,7 @@
 {
-    "regex": "/home/muhammad.zeeshan/dataset/gwk_data/hdf5/153_bbh/*.h5",
-    "default_datasets": ["/C01:Mixed/posterior_samples", "/C00:NRSur7dq4/posterior_samples/","/C00:Mixed/posterior_samples/"],
-    "max_samples": 1993,
     "default_mass_prior": "flat-detector-components",
     "default_spin_prior": "component",
     "default_distance_prior": "comoving"

 {
+    "regex": "/home/muhammad.zeeshan/projects/active/ecc_sub_pop_and_RIFT/dataset/Circ_BBH/*.h5",
+    "default_datasets": ["/C00:NRSur7dq4/posterior_samples/","/C01:Mixed/posterior_samples/","/C00:Mixed/posterior_samples/"],
+    "max_samples": 1990,
     "default_mass_prior": "flat-detector-components",
     "default_spin_prior": "component",
     "default_distance_prior": "comoving"

f_sampler.json DELETED Viewed

@@ -1,37 +0,0 @@
-{
-    "chain_batch_size": 0,
-    "n_chains": 30,
-    "batch_size": 10000,
-    "history_window": 1500,
-    "n_epochs": 30,
-    "n_max_examples": 80000,
-    "n_NFproposal_batch_size": 20,
-    "n_global_steps": 40,
-    "n_local_steps": 150,
-    "global_thinning": 1,
-    "local_thinning": 1,
-    "n_production_loops": 30,
-    "n_training_loops": 40,
-    "local_sampler_name": "hmc",
-    "step_size": 0.01,
-    "n_leapfrog": 12,
-    "learning_rate": 0.001,
-    "rq_spline_hidden_units": [
-        128,
-        128
-    ],
-    "rq_spline_n_bins": 8,
-    "rq_spline_n_layers": 6,
-    "rq_spline_range": [
-        -12.0,
-        12.0
-    ],
-    "verbose": false,
-    "mass_matrix": [1.4342073, 1.5670033, 6.0871758, 31.511946, 1434.8206, 11271.613, 0.13334235, 0.21432792, 27126.317, 72.389494, 41.582696, 727.04235, 33.170976, 33.629473, 35.660747, 0.73138513, 0.024849243, 0.99208484, 0.16519027, 0.027433022, 0.64396061, 2.8166763, 3.386657]
-}

figs/autocorrelation_plots.html ADDED Viewed

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SHA256: e8834ac04b9f0f15c0b1c800521c64b0171062190bc556b4b9b461e80258a320
Pointer size: 131 Bytes
Size of remote file: 540 kB

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nf_samples_mapping.json DELETED Viewed

@@ -1,50 +0,0 @@
-{
-    "a_1_comp1_loc_bpl_0": 0,
-    "a_1_comp1_scale_bpl_0": 1,
-    "alpha1_bpl_0": 2,
-    "alpha2_bpl_0": 3,
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-    "cos_tilt_1_loc_bpl_0": 5,
-    "cos_tilt_1_scale_bpl_0": 6,
-    "cos_tilt_zeta_bpl_0": 7,
-    "delta_m1": 8,
-    "delta_m2": 9,
-    "lambda_0": 10,
-    "lambda_1": 11,
-    "log_rate": 12,
-    "m1_loc_g_0": 13,
-    "m1_loc_g_1": 14,
-    "m1_scale_g_0": 15,
-    "m1_scale_g_1": 16,
-    "m1break_bpl_0": 17,
-    "m1min": 18,
-    "m2min": 19,
-    "redshift_kappa_bpl_0": 20,
-    "m1_low_g_0": 18,
-    "m1_low_g_1": 18,
-    "m1min_bpl_0": 18,
-    "a_1_comp1_loc_g_0": 0,
-    "a_1_comp1_loc_g_1": 0,
-    "a_1_comp1_scale_g_0": 1,
-    "a_1_comp1_scale_g_1": 1,
-    "a_2_comp1_loc_g_0": 0,
-    "a_2_comp1_loc_g_1": 0,
-    "a_2_comp1_loc_bpl_0": 0,
-    "a_2_comp1_scale_g_0": 1,
-    "a_2_comp1_scale_g_1": 1,
-    "a_2_comp1_scale_bpl_0": 1,
-    "cos_tilt_zeta_g_0": 7,
-    "cos_tilt_zeta_g_1": 7,
-    "cos_tilt_1_loc_g_0": 5,
-    "cos_tilt_1_loc_g_1": 5,
-    "cos_tilt_1_scale_g_0": 6,
-    "cos_tilt_1_scale_g_1": 6,
-    "cos_tilt_2_loc_bpl_0": 5,
-    "cos_tilt_2_loc_g_0": 5,
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-    "cos_tilt_2_scale_bpl_0": 6,
-    "cos_tilt_2_scale_g_0": 6,
-    "cos_tilt_2_scale_g_1": 6,
-    "redshift_kappa_g_0": 20,
-    "redshift_kappa_g_1": 20
-}

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sampler_cfg.json → numpyro_cfg.json RENAMED Viewed

@@ -1,23 +1,25 @@
 {
     "kernel": {
-        "step_size": 0.5,
         "inverse_mass_matrix": null,
         "adapt_step_size": true,
         "adapt_mass_matrix": true,
         "dense_mass": false,
         "target_accept_prob": 0.8,
-        "max_tree_depth": 8,
         "find_heuristic_step_size": true,
         "forward_mode_differentiation": false,
         "regularize_mass_matrix": true
     },
     "mcmc": {
-        "num_warmup": 3000,
-        "num_samples": 7000,
-        "num_chains": 10,
         "thinning": 1,
-        "chain_method": "sequential",
         "progress_bar": true,
         "jit_model_args": true
     }
 }

 {
+    "sampler_name": "numpyro",
     "kernel": {
+        "step_size": 1.0,
         "inverse_mass_matrix": null,
         "adapt_step_size": true,
         "adapt_mass_matrix": true,
         "dense_mass": false,
         "target_accept_prob": 0.8,
+        "max_tree_depth": [12,8],
         "find_heuristic_step_size": true,
         "forward_mode_differentiation": false,
         "regularize_mass_matrix": true
     },
     "mcmc": {
+        "num_warmup": 5000,
+        "num_samples": 10000,
         "thinning": 1,
+        "num_chains": 10,
+        "chain_method": "parallel",
         "progress_bar": true,
+        "progress_rate": null,
         "jit_model_args": true
     }
 }

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physical_rates.py ADDED Viewed

	@@ -0,0 +1,74 @@

+import numpy as np
+# -------------------------------------------------
+# Load samples.dat
+# -------------------------------------------------
+samples = np.genfromtxt(
+    "./numpyro_inference/samples.dat",
+    names=True,
+    comments="#"
+)
+# -------------------------------------------------
+# Read columns
+# -------------------------------------------------
+log_rate = samples["log_rate"]
+lambda_0 = samples["lambda_0"]
+lambda_1 = samples["lambda_1"]
+# Third component fraction
+lambda_2 = 1.0 - lambda_0 - lambda_1
+# -------------------------------------------------
+# Convert total rate
+# -------------------------------------------------
+# Use ONE convention only
+# Natural log convention
+Rtot = np.exp(log_rate)
+# Base-10 log convention
+# Rtot = 10**log_rate
+# -------------------------------------------------
+# Physical rates for each component
+# -------------------------------------------------
+R0 = lambda_0 * Rtot
+R1 = lambda_1 * Rtot
+R2 = lambda_2 * Rtot
+# -------------------------------------------------
+# Helper function
+# -------------------------------------------------
+def summarize(name, arr):
+    median = np.median(arr)
+    low = np.percentile(arr, 5)
+    high = np.percentile(arr, 95)
+    print(
+        f"{name:15s} "
+        f"median={median:10.3f}   "
+        f"5%={low:10.3f}   "
+        f"95%={high:10.3f}"
+    )
+# -------------------------------------------------
+# Print results
+# -------------------------------------------------
+print("\n===== Mixture Fractions =====")
+summarize("lambda_0", lambda_0)
+summarize("lambda_1", lambda_1)
+summarize("lambda_2", lambda_2)
+print("\n===== Physical Rates =====")
+summarize("R_total", Rtot)
+summarize("R0", R0)
+summarize("R1", R1)
+summarize("R2", R2)

plots.sh DELETED Viewed

@@ -1,35 +0,0 @@
-#!/bin/bash
-dir=figs
-mkdir $dir
-labels="a_1_comp1_loc_bpl_0 a_1_comp1_scale_bpl_0 alpha1_bpl_0 alpha2_bpl_0 beta cos_tilt_1_loc_bpl_0 cos_tilt_1_scale_bpl_0 cos_tilt_zeta_bpl_0 delta_m1 delta_m2 lambda_0 lambda_1 log_rate m1_loc_g_0 m1_loc_g_1 m1_scale_g_0 m1_scale_g_1 m1break_bpl_0 m1min m2min redshift_kappa_bpl_0"
-gwk_corner_plot \
-    --data "./numpyro_inference/samples.dat" \
-    --output $dir/samples.png \
-    --bin 30 \
-    --scale 1.5 \
-    --show-titles \
-    --labels $labels
-gwk_chain_plot \
-    --data "./numpyro_inference/chain_*.dat" \
-    --output $dir/chains.png \
-    --label $labels \
-    --width 10 \
-    --dpi 200 \
-    --alpha 0.3
-for file in ./numpyro_inference/chain_*.dat; do
-    name=$(basename "$file" .dat)
-    gwk_chain_plot \
-        --data $file \
-        --output "$dir/${name}.png" \
-        --title "Chains ($name)" \
-        --width 10 \
-        --dpi 200 \
-        --alpha 0.5 \
-        --labels $labels
-done

pmean.json CHANGED Viewed

@@ -1,6 +1,6 @@
 {
     "estimator_type": "injection",
-    "filename": "/home/muhammad.zeeshan/dataset/VTs/o4a/mixture-semi_o1_o2-real_o3_o4a-cartesian_spins_20250503134659UTC.hdf",
     "batch_size": 1065922,
     "snr_cut": 10.0,
     "far_cut": 1.0

 {
     "estimator_type": "injection",
+    "filename": "/home/muhammad.zeeshan/dataset/VTs/o4a_o4b_o4c/mixture-semi_o1_o2-real_o3_o4a-cartesian_spins_20250503134659UTC.hdf",
     "batch_size": 1065922,
     "snr_cut": 10.0,
     "far_cut": 1.0

prior.json CHANGED Viewed

@@ -2,28 +2,32 @@
     "log_rate": {
         "dist": "Uniform",
         "high": 10.0,
-        "low": -10.0
     },
-    "alpha[1-2]_bpl_[0-9]+": {
         "dist": "Uniform",
         "high": 12.0,
         "low": -4.0
     },
-    "beta": {
         "dist": "Uniform",
         "high": 7.0,
         "low": -2.0
     },
-    "delta_m1": {
         "dist": "Uniform",
         "high": 10.0,
         "low": 0.0
     },
-    "delta_m2": {
         "dist": "Uniform",
         "high": 10.0,
         "low": 0.0
     },
     "lambda_0": {
         "dist": "DirichletElement",
         "n_dimensions": 3,
@@ -35,12 +39,12 @@
         "order": 1,
         "concentration0": "lambda_0"
     },
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         "dist": "Uniform",
         "high": 20.0,
         "low": 5.0
     },
-    "m1_loc_g_1": {
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         "high": 60.0,
         "low": 25.0
@@ -50,97 +54,69 @@
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         "low": 3.0
     },
-    "m2min": {
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         "high": "m1min",
         "low": 3.0
     },
-    "m1break_bpl_0": {
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         "high": 50.0,
         "low": 20.0
     },
     "m1max": 300.0,
-    "m1max_(bpl|g)_[0-9]+": "m1max",
-    "m1min_(bpl|g)_[0-9]+": "m1min",
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-    "m1_low_g_[0-9]+": "m1min",
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         "low": 0.0
     },
-    "m1_scale_g_1": {
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-        "low": 0.0
-    },
-    "a_1_comp1_loc_(bpl|g)_[0-9]+": "a_1_comp1_loc_bpl_0",
-    "a_2_comp1_loc_(bpl|g)_[0-9]+": "a_1_comp1_loc_bpl_0",
-    "a_1_comp1_scale_bpl_0": {
-        "dist": "Uniform",
-        "high": 1.0,
-        "low": 0.005
-    },
-    "a_1_comp1_scale_g_[0-9]+": "a_1_comp1_scale_bpl_0",
-    "a_2_comp1_scale_(bpl|g)_[0-9]+": "a_1_comp1_scale_bpl_0",
-    "a_[1-2]_comp2_loc_(bpl|g)_[0-9]+": 0.0,
-    "a_[1-2]_comp2_scale_(bpl|g)_[0-9]+": 1.0,
-    "a_[1-2]_comp[1-2]_low_(bpl|g)_[0-9]+": 0.0,
-    "a_[1-2]_comp[1-2]_high_(bpl|g)_[0-9]+": 1.0,
-    "cos_tilt_zeta_bpl_0": {
-        "dist": "Uniform",
-        "high": 1.0,
-        "low": 0.0
     },
-    "cos_tilt_zeta_(bpl|g)_[0-9]+": "cos_tilt_zeta_bpl_0",
-    "cos_tilt_1_loc_bpl_0": {
         "dist": "Uniform",
         "high": 1.0,
         "low": -1.0
     },
-    "cos_tilt_1_loc_bpl_1": "cos_tilt_1_loc_bpl_0",
-    "cos_tilt_1_loc_g_0": "cos_tilt_1_loc_bpl_0",
-    "cos_tilt_1_loc_g_1": "cos_tilt_1_loc_bpl_0",
-    "cos_tilt_2_loc_(bpl|g)_[0-9]+": "cos_tilt_1_loc_bpl_0",
-    "cos_tilt_1_scale_bpl_0": {
-        "dist": "Uniform",
-        "high": 4.0,
-        "low": 0.01
-    },
-    "cos_tilt_1_scale_bpl_1": "cos_tilt_1_scale_bpl_0",
-    "cos_tilt_1_scale_g_0": "cos_tilt_1_scale_bpl_0",
-    "cos_tilt_1_scale_g_1": "cos_tilt_1_scale_bpl_0",
-    "cos_tilt_2_scale_(bpl|g)_[0-9]+": "cos_tilt_1_scale_bpl_0",
-    "cos_tilt_[1-2]_minimum_(bpl|g)_[0-9]+": -1.0,
     "redshift_kappa_bpl_0": {
         "dist": "Uniform",
         "high": 10.0,
         "low": -10.0
     },
-    "redshift_kappa_(bpl|g)_[0-9]+": "redshift_kappa_bpl_0",
-    "redshift_z_max_(bpl|g)_[0-9]+": 2.3
 }

     "log_rate": {
         "dist": "Uniform",
         "high": 10.0,
+        "low": -4.0
     },
+    "m1_alpha[1-2]_bpl_[0-9]+": {
         "dist": "Uniform",
         "high": 12.0,
         "low": -4.0
     },
+    "beta_bpl_0": {
         "dist": "Uniform",
         "high": 7.0,
         "low": -2.0
     },
+    "beta_gpl_0": "beta_bpl_0",
+    "beta_gpl_1": "beta_bpl_0",
+    "m1_delta": {
         "dist": "Uniform",
         "high": 10.0,
         "low": 0.0
     },
+    "m2_delta_bpl_0": {
         "dist": "Uniform",
         "high": 10.0,
         "low": 0.0
     },
+    "m2_delta_gpl_0": "m2_delta_bpl_0",
+    "m2_delta_gpl_1": "m2_delta_bpl_0",
     "lambda_0": {
         "dist": "DirichletElement",
         "n_dimensions": 3,
         "order": 1,
         "concentration0": "lambda_0"
     },
+    "m1_loc_gpl_0": {
         "dist": "Uniform",
         "high": 20.0,
         "low": 5.0
     },
+    "m1_loc_gpl_1": {
         "dist": "Uniform",
         "high": 60.0,
         "low": 25.0
         "high": 10.0,
         "low": 3.0
     },
+    "m2_low_bpl_0": {
         "dist": "Uniform",
         "high": "m1min",
         "low": 3.0
     },
+    "m2_low_gpl_0": "m2_low_bpl_0",
+    "m2_low_gpl_1": "m2_low_bpl_0",
+    "m1_break_bpl_0": {
         "dist": "Uniform",
         "high": 50.0,
         "low": 20.0
     },
     "m1max": 300.0,
+    "m1_high_(bpl|g)_[0-9]+": "m1max",
+    "m1_low_(bpl|g)_[0-9]+": "m1min",
+	"m1_high_gpl_[0-9]+": "m1max",
+	"m1_low_gpl_[0-9]+": "m1min",
+    "m1_scale_gpl_0": {
         "dist": "Uniform",
         "high": 10.0,
         "low": 0.0
     },
+    "m1_scale_gpl_1": {
         "dist": "Uniform",
         "high": 10.0,
         "low": 0.0
     },
+    "chi_eff_loc_bpl_0": {
         "dist": "Uniform",
         "high": 1.0,
         "low": -1.0
     },
+    "chi_eff_loc_gpl_[0-9]+": "chi_eff_loc_bpl_0",
+    "chi_eff_scale_bpl_0": {
+        "dist": "LogUniform",
+        "high": 4.0,
+        "low": 0.01
     },
+    "chi_eff_scale_gpl_[0-9]+": "chi_eff_scale_bpl_0",
+    "chi_eff_low_(bpl|gpl)_[0-9]+": -1.0,
+    "chi_eff_high_(bpl|gpl)_[0-9]+": 1.0,
+    "chi_eff_epsilon_bpl_0":  {
         "dist": "Uniform",
         "high": 1.0,
         "low": -1.0
     },
+    "chi_eff_epsilon_gpl_[0-9]": "chi_eff_epsilon_bpl_0",
     "redshift_kappa_bpl_0": {
         "dist": "Uniform",
         "high": 10.0,
         "low": -10.0
     },
+	"redshift_kappa_(bpl|gpl)_[0-9]+": "redshift_kappa_bpl_0",
+    "redshift_z_max_(bpl|gpl)_[0-9]+": 2.3,
+    "eccentricity_low_(bpl|gpl)_[0-9]+": 1e-6,
+    "eccentricity_high_(bpl|gpl)_[0-9]+": 0.5,
+    "eccentricity_alpha_bpl_0": {
+        "dist": "Uniform",
+        "high": 5.0,
+        "low": -5.0
+    },
+    "eccentricity_alpha_gpl_[0-9]+": "eccentricity_alpha_bpl_0"
 }

run.sh CHANGED Viewed

@@ -1,17 +1,16 @@
 #!/bin/bash
-GPU=1
-CPU_MASK="16-23,144-151"
-GWKOKAB_LOG_FILE="o4a_reproduce_spin_mag_tilt.log" CUDA_VISIBLE_DEVICES=$GPU taskset -c "${CPU_MASK}" n_sage_o4_n_bpls_m_gs \
 	--n-bpl 1 \
-	--n-g 2 \
     --seed $RANDOM \
 	--n-buckets 1 \
     --data-loader-cfg "./data_cfg.json" \
 	--prior-cfg "./prior.json" \
 	--pmean-cfg "./pmean.json" \
-	--sampler-cfg "./sampler_cfg.json" \
     --variance-cut-threshold 1.0 \
-    --add-redshift \
-    --add-spin-magnitude-mixture \
-    --add-tilt

 #!/bin/bash
+GPU=0
+CPU_MASK="1-20"
+GWKOKAB_LOG_FILE="o4a.log" CUDA_VISIBLE_DEVICES=$GPU taskset -c "${CPU_MASK}" discrete_subpopulation \
 	--n-bpl 1 \
+	--n-gpl 2 \
     --seed $RANDOM \
 	--n-buckets 1 \
     --data-loader-cfg "./data_cfg.json" \
 	--prior-cfg "./prior.json" \
 	--pmean-cfg "./pmean.json" \
+	--sampler-cfg "./numpyro_cfg.json" \
     --variance-cut-threshold 1.0 \
+    --add-skew-normal-chi-eff \
+    --add-powerlaw-redshift