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added phase 1.5 results
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‎docs/HPC_GUIDE.md‎

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@@ -47,7 +47,7 @@ watch -n 10 "ls -1 results_JOBID | wc -l"
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# Fetching the results once the job is done
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scp -r kanagnostopoul@snellius.surf.nl:~/CSS_Project/results/phase1_18680757/ ./results/
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scp -r kanagnostopoul@snellius.surf.nl:~/CSS_Project/results/phase1_ 18682575/ ./results/
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```
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The jobscript template can be found in ```run_analysis.sh``` (default rome paritition).

‎hpc_data/phase1.5_18682575/experiments.log‎

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2026-01-26 11:37:31,253 [INFO] ============================================================
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2026-01-26 11:37:31,253 [INFO] PREDATOR-PREY HYDRA EFFECT EXPERIMENTS
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2026-01-26 11:37:31,253 [INFO] ============================================================
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2026-01-26 11:37:31,253 [INFO] Phases: [1]
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2026-01-26 11:37:31,253 [INFO] Output: results/phase1_18682575
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2026-01-26 11:37:31,253 [INFO] Cores: 32
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2026-01-26 11:37:31,254 [INFO] Numba: ENABLED
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2026-01-26 11:37:31,254 [INFO]
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2026-01-26 11:37:31,254 [INFO] ============================================================
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2026-01-26 11:37:31,254 [INFO] PHASE 1
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2026-01-26 11:37:31,254 [INFO] ============================================================
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2026-01-26 11:37:31,254 [INFO] Estimated: 9,000 sims, ~13.2h on 32 cores (~423 core-hours)
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2026-01-26 11:37:31,254 [INFO] Dry run - skipping execution
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2026-01-26 11:37:31,254 [INFO]
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2026-01-26 11:37:31,254 [INFO] ============================================================
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2026-01-26 11:37:31,254 [INFO] EXPERIMENTS COMPLETE
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2026-01-26 11:37:31,254 [INFO] ============================================================
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2026-01-26 11:37:32,419 [INFO] ============================================================
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2026-01-26 11:37:32,419 [INFO] PREDATOR-PREY HYDRA EFFECT EXPERIMENTS
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2026-01-26 11:37:32,419 [INFO] ============================================================
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2026-01-26 11:37:32,419 [INFO] Phases: [1]
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2026-01-26 11:37:32,419 [INFO] Output: results/phase1_18682575
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2026-01-26 11:37:32,419 [INFO] Cores: 32
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2026-01-26 11:37:32,419 [INFO] Numba: ENABLED
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2026-01-26 11:37:32,420 [INFO]
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2026-01-26 11:37:32,420 [INFO] ============================================================
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2026-01-26 11:37:32,420 [INFO] PHASE 1
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2026-01-26 11:37:32,420 [INFO] ============================================================
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2026-01-26 11:37:32,420 [INFO] Estimated: 9,000 sims, ~13.2h on 32 cores (~423 core-hours)
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2026-01-26 11:37:38,321 [INFO] Phase 1: 600 simulations
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2026-01-26 11:37:38,321 [INFO] Grid: 20 prey_death values × 30 reps (prey_birth=0.2)
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2026-01-26 12:11:49,630 [INFO] Phase 1 complete. Results: results/phase1_18682575/phase1_results.jsonl
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2026-01-26 12:11:49,668 [INFO] Phase 1 runtime: 34.3 minutes
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2026-01-26 12:11:49,669 [INFO]
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2026-01-26 12:11:49,669 [INFO] ============================================================
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2026-01-26 12:11:49,669 [INFO] EXPERIMENTS COMPLETE
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2026-01-26 12:11:49,669 [INFO] ============================================================

‎hpc_data/phase1.5_18682575/phase1_config.json‎

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{
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"grid_size": 1000,
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"densities": [
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0.3,
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],
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"grid_sizes": [
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],
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"prey_birth": 0.2,
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"prey_death": 0.05,
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"predator_birth": 0.8,
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"predator_death": 0.05,
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"critical_prey_birth": 0.22,
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"critical_prey_death": 0.04,
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"prey_birth_range": [
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],
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"prey_death_range": [
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],
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"n_prey_birth": 15,
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"n_prey_death": 20,
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"predator_birth_values": [
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"predator_death_values": [
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"prey_death_offsets": [
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"n_replicates": 30,
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"warmup_steps": 1000,
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"measurement_steps": 1000,
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"with_evolution": false,
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"evolve_sd": 0.1,
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"evolve_min": 0.001,
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"synchronous": false,
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"directed_hunting_values": [
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"save_timeseries": false,
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"timeseries_subsample": 10,
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"collect_pcf": true,
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"pcf_sample_rate": 0.2,
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"pcf_max_distance": 20.0,
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"pcf_n_bins": 20,
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"min_density_for_analysis": 0.002,
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"perturbation_magnitude": 0.1,
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"n_jobs": 32
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}

‎hpc_data/phase1.5_18682575/phase1_metadata.json‎

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{
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"phase": 1,
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"description": "Parameter sweep for critical point",
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"n_sims": 600,
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"timestamp": "2026-01-26 12:11:49",
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"config": {
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"grid_size": 1000,
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"densities": [
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],
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"grid_sizes": [
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"prey_birth": 0.2,
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"prey_death": 0.05,
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"predator_birth": 0.8,
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"predator_death": 0.05,
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"critical_prey_birth": 0.22,
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"critical_prey_death": 0.04,
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"prey_birth_range": [
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],
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"prey_death_range": [
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],
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"n_prey_birth": 15,
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"n_prey_death": 20,
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"predator_birth_values": [
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"predator_death_values": [
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"prey_death_offsets": [
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"n_replicates": 30,
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"warmup_steps": 1000,
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"measurement_steps": 1000,
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"with_evolution": false,
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"evolve_sd": 0.1,
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"evolve_min": 0.001,
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"evolve_max": 0.1,
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"sensitivity_sd_values": [
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"synchronous": false,
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"directed_hunting": false,
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"directed_hunting_values": [
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true
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],
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"save_timeseries": false,
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"timeseries_subsample": 10,
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"collect_pcf": true,
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"pcf_sample_rate": 0.2,
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"pcf_max_distance": 20.0,
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"pcf_n_bins": 20,
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"min_density_for_analysis": 0.002,
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"perturbation_magnitude": 0.1,
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"n_jobs": 32
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}
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}

‎hpc_data/phase1.5_18682575/phase1_results.jsonl‎

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‎hpc_data/phase1_18677015/experiments.log‎

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2026-01-25 21:27:51,540 [INFO] ============================================================
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2026-01-25 21:27:51,540 [INFO] PREDATOR-PREY HYDRA EFFECT EXPERIMENTS
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2026-01-25 21:27:51,540 [INFO] ============================================================
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2026-01-25 21:27:51,540 [INFO] Phases: [1]
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2026-01-25 21:27:51,540 [INFO] Output: results/phase1_18677015
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2026-01-25 21:27:51,540 [INFO] Cores: 32
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2026-01-25 21:27:51,540 [INFO] Numba: ENABLED
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2026-01-25 21:27:51,540 [INFO]
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2026-01-25 21:27:51,540 [INFO] ============================================================
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2026-01-25 21:27:51,541 [INFO] PHASE 1
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2026-01-25 21:27:51,541 [INFO] ============================================================
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2026-01-25 21:27:51,541 [INFO] Estimated: 9,000 sims, ~13.2h on 32 cores (~423 core-hours)
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2026-01-25 21:27:51,541 [INFO] Dry run - skipping execution
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2026-01-25 21:27:51,541 [INFO]
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2026-01-25 21:27:51,541 [INFO] ============================================================
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2026-01-25 21:27:51,541 [INFO] EXPERIMENTS COMPLETE
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2026-01-25 21:27:51,541 [INFO] ============================================================
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2026-01-25 21:27:52,718 [INFO] ============================================================
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2026-01-25 21:27:52,718 [INFO] PREDATOR-PREY HYDRA EFFECT EXPERIMENTS
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2026-01-25 21:27:52,718 [INFO] ============================================================
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2026-01-25 21:27:52,718 [INFO] Phases: [1]
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2026-01-25 21:27:52,718 [INFO] Output: results/phase1_18677015
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2026-01-25 21:27:52,719 [INFO] Cores: 32
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2026-01-25 21:27:52,719 [INFO] Numba: ENABLED
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2026-01-25 21:27:52,719 [INFO]
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2026-01-25 21:27:52,719 [INFO] ============================================================
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2026-01-25 21:27:52,719 [INFO] PHASE 1
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2026-01-25 21:27:52,719 [INFO] ============================================================
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2026-01-25 21:27:52,719 [INFO] Estimated: 9,000 sims, ~13.2h on 32 cores (~423 core-hours)
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2026-01-25 21:27:58,720 [INFO] Phase 1: 600 simulations
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2026-01-25 21:27:58,721 [INFO] Grid: 20 prey_death values × 30 reps (prey_birth=0.2)
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2026-01-25 21:46:45,197 [INFO] Phase 1 complete. Results: results/phase1_18677015/phase1_results.jsonl
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2026-01-25 21:46:45,220 [INFO] Phase 1 runtime: 18.9 minutes
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2026-01-25 21:46:45,220 [INFO]
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2026-01-25 21:46:45,220 [INFO] ============================================================
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2026-01-25 21:46:45,220 [INFO] EXPERIMENTS COMPLETE
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2026-01-25 21:46:45,220 [INFO] ============================================================

‎hpc_data/phase1_18677015/phase1_config.json‎

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{
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"grid_size": 1000,
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"densities": [
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0.3,
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0.15
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],
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"grid_sizes": [
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500,
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1000
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],
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"prey_birth": 0.2,
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"prey_death": 0.05,
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"predator_birth": 0.8,
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"predator_death": 0.05,
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"critical_prey_birth": 0.22,
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"critical_prey_death": 0.04,
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"prey_birth_range": [
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0.1,
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],
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"prey_death_range": [
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0.2
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],
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"n_prey_birth": 15,
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"n_prey_death": 20,
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"predator_birth_values": [
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"prey_death_offsets": [
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],
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"n_replicates": 30,
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"warmup_steps": 1000,
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"measurement_steps": 1000,
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"with_evolution": false,
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"evolve_sd": 0.1,
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"evolve_min": 0.001,
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"evolve_max": 0.1,
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"sensitivity_sd_values": [
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],
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"synchronous": false,
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"directed_hunting": false,
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"directed_hunting_values": [
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false,
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true
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],
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"save_timeseries": false,
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"timeseries_subsample": 10,
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"collect_pcf": true,
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"pcf_sample_rate": 0.2,
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"pcf_max_distance": 20.0,
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"pcf_n_bins": 20,
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"min_density_for_analysis": 0.002,
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"perturbation_magnitude": 0.1,
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"n_jobs": 32
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}

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