Upload finetuned TabPFN-SDM models (nonspatial + spatial)
Browse files- .gitattributes +2 -0
- LICENSE +201 -0
- README.md +187 -0
- config.json +57 -0
- tabpfn-sdm-nonspatial.pt +3 -0
- tabpfn-sdm-spatial.pt +3 -0
- training_logs/tabpfn-sdm-nonspatial_training_log.csv +101 -0
- training_logs/tabpfn-sdm-nonspatial_training_plot.png +3 -0
- training_logs/tabpfn-sdm-spatial_training_log.csv +101 -0
- training_logs/tabpfn-sdm-spatial_training_plot.png +3 -0
.gitattributes
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*.zip filter=lfs diff=lfs merge=lfs -text
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*.zst filter=lfs diff=lfs merge=lfs -text
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*.zip filter=lfs diff=lfs merge=lfs -text
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*.zst filter=lfs diff=lfs merge=lfs -text
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*tfevents* filter=lfs diff=lfs merge=lfs -text
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training_logs/tabpfn-sdm-nonspatial_training_plot.png filter=lfs diff=lfs merge=lfs -text
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training_logs/tabpfn-sdm-spatial_training_plot.png filter=lfs diff=lfs merge=lfs -text
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LICENSE
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END OF TERMS AND CONDITIONS
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README.md
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
---
|
| 2 |
+
library_name: pytorch
|
| 3 |
+
pipeline_tag: tabular-classification
|
| 4 |
+
base_model: Prior-Labs/TabPFN-v2-clf
|
| 5 |
+
license: other
|
| 6 |
+
license_name: prior-labs-license-v1.1
|
| 7 |
+
license_link: LICENSE
|
| 8 |
+
tags:
|
| 9 |
+
- pytorch
|
| 10 |
+
- tabpfn
|
| 11 |
+
- species-distribution-modeling
|
| 12 |
+
- ecology
|
| 13 |
+
- biodiversity
|
| 14 |
+
- tabular-classification
|
| 15 |
+
- finetuned
|
| 16 |
+
metrics:
|
| 17 |
+
- roc_auc
|
| 18 |
+
- average_precision
|
| 19 |
+
---
|
| 20 |
+
|
| 21 |
+
# TabPFN-SDM: TabPFN Finetuned for Species Distribution Modeling
|
| 22 |
+
|
| 23 |
+
**Built with PriorLabs-TabPFN**
|
| 24 |
+
|
| 25 |
+
Finetuned [TabPFN](https://huggingface.co/Prior-Labs/TabPFN-v2-clf) models for binary species distribution modeling (SDM). These models were adapted from the pretrained TabPFN foundation model to improve performance on presence/absence classification tasks common in ecology and conservation biology.
|
| 26 |
+
|
| 27 |
+
## Model Variants
|
| 28 |
+
|
| 29 |
+
| File | Description | Epochs | Val ROC-AUC | Val PR-AUC |
|
| 30 |
+
|------|-------------|--------|-------------|------------|
|
| 31 |
+
| `tabpfn-sdm-nonspatial.pt` | Standard (non-spatial) train/test evaluation | 100 | 0.747 | 0.261 |
|
| 32 |
+
| `tabpfn-sdm-spatial.pt` | Spatially-separated train/test evaluation | 50 | 0.653 | 0.144 |
|
| 33 |
+
|
| 34 |
+
The **non-spatial** variant is trained and evaluated using standard random train/test splits. The **spatial** variant uses 10km buffer-based spatial separation between training and test data, which is more realistic for ecological applications but results in a harder prediction task.
|
| 35 |
+
|
| 36 |
+
## Training Details
|
| 37 |
+
|
| 38 |
+
### Two-Step Finetuning
|
| 39 |
+
|
| 40 |
+
Each model was finetuned in two steps:
|
| 41 |
+
|
| 42 |
+
1. **Step 1 (Cross-Validation):** Finetuned on CV-generated train/test splits from training data. Learning rate: 1e-5. Goal: adapt TabPFN to general SDM classification patterns.
|
| 43 |
+
2. **Step 2 (Benchmark):** Further finetuned on actual benchmark train/test splits. Learning rate: 1e-6. Goal: refine for the specific evaluation setup.
|
| 44 |
+
|
| 45 |
+
### Training Data
|
| 46 |
+
|
| 47 |
+
- **226 species** across **6 geographic regions**: AWT (Australia), NSW (New South Wales), CAN (Canada), NZ (New Zealand), SA (South Africa), SWI (Switzerland)
|
| 48 |
+
- Species split: 62.5% finetuning, 7.5% validation, 30% held-out test
|
| 49 |
+
- Data from the `disdat` R package (standardized presence-only and presence-absence datasets)
|
| 50 |
+
- Features include environmental covariates (7-12 per region) with native categorical variable support
|
| 51 |
+
|
| 52 |
+
### Training Procedure
|
| 53 |
+
|
| 54 |
+
- **Base model:** TabPFN v2 classifier (`Prior-Labs/TabPFN-v2-clf`)
|
| 55 |
+
- **Optimizer:** AdamW
|
| 56 |
+
- **LR Schedule:** OneCycleLR
|
| 57 |
+
- **Training approach:** Iterative R-Python epoch loop with smart sub-batching
|
| 58 |
+
- R generates cross-validation data (parallelized with 20 cores)
|
| 59 |
+
- Python trains one epoch on GPU
|
| 60 |
+
- Smart sub-batching: keeps ALL presences (rare, valuable) in every sub-batch, partitions absences across sub-batches
|
| 61 |
+
- **Max training samples per sub-batch:** 1,500
|
| 62 |
+
- **Random seed:** 32639
|
| 63 |
+
|
| 64 |
+
### Hardware
|
| 65 |
+
|
| 66 |
+
- GPU: NVIDIA RTX 4000 ADA GPU with 20GB VRAM
|
| 67 |
+
- Peak memory: ~14GB during training
|
| 68 |
+
- Training time: ~188 hours total (Step 1 + Step 2) for non-spatial; ~178 hours for spatial
|
| 69 |
+
|
| 70 |
+
## Usage
|
| 71 |
+
|
| 72 |
+
### Python
|
| 73 |
+
|
| 74 |
+
```python
|
| 75 |
+
import torch
|
| 76 |
+
from tabpfn import TabPFNClassifier
|
| 77 |
+
from huggingface_hub import hf_hub_download
|
| 78 |
+
|
| 79 |
+
# Download model
|
| 80 |
+
model_path = hf_hub_download(
|
| 81 |
+
repo_id="rdinnager/tabpfn-sdm-finetuned",
|
| 82 |
+
filename="tabpfn-sdm-nonspatial.pt"
|
| 83 |
+
)
|
| 84 |
+
|
| 85 |
+
# Load finetuned model
|
| 86 |
+
device = "cuda" if torch.cuda.is_available() else "cpu"
|
| 87 |
+
clf = TabPFNClassifier(
|
| 88 |
+
ignore_pretraining_limits=True,
|
| 89 |
+
device=device,
|
| 90 |
+
n_estimators=8,
|
| 91 |
+
random_state=32639
|
| 92 |
+
)
|
| 93 |
+
clf._initialize_model_variables()
|
| 94 |
+
|
| 95 |
+
checkpoint = torch.load(model_path, map_location=device, weights_only=False)
|
| 96 |
+
clf.models_[0].load_state_dict(checkpoint["model_state_dict"])
|
| 97 |
+
clf.models_[0].eval()
|
| 98 |
+
|
| 99 |
+
# Fit on training data and predict
|
| 100 |
+
clf.fit(X_train, y_train)
|
| 101 |
+
probs = clf.predict_proba(X_test)[:, 1] # Probability of presence
|
| 102 |
+
```
|
| 103 |
+
|
| 104 |
+
### R (via reticulate)
|
| 105 |
+
|
| 106 |
+
The companion R code provides inference wrappers. See the [TabPFN-SDM GitHub repository](https://github.com/rdinnager/TabPFN-SDM) for the full pipeline.
|
| 107 |
+
|
| 108 |
+
```r
|
| 109 |
+
source("R/run_tabpfn_finetuned.R")
|
| 110 |
+
|
| 111 |
+
result <- run_tabpfn_finetuned_ensemble(
|
| 112 |
+
train_dat = train_data,
|
| 113 |
+
test_dat = test_data,
|
| 114 |
+
model_path = "tabpfn-sdm-nonspatial.pt",
|
| 115 |
+
max_train_size = 1000L,
|
| 116 |
+
n_estimators = 8L
|
| 117 |
+
)
|
| 118 |
+
|
| 119 |
+
# result$test contains y_truth and y_pred columns
|
| 120 |
+
```
|
| 121 |
+
|
| 122 |
+
### Ensemble Inference (Recommended)
|
| 123 |
+
|
| 124 |
+
For best results, use ensemble inference which matches the training procedure:
|
| 125 |
+
- Keeps ALL presences in every sub-batch
|
| 126 |
+
- Partitions absences across sub-batches for 100% data usage
|
| 127 |
+
- Averages predictions across sub-batches
|
| 128 |
+
|
| 129 |
+
This is implemented in `run_tabpfn_finetuned_ensemble()` (R) or can be replicated in Python using the utilities in the GitHub repo.
|
| 130 |
+
|
| 131 |
+
## Checkpoint Contents
|
| 132 |
+
|
| 133 |
+
Each `.pt` file is a PyTorch checkpoint dictionary containing:
|
| 134 |
+
|
| 135 |
+
| Key | Description |
|
| 136 |
+
|-----|-------------|
|
| 137 |
+
| `model_state_dict` | Finetuned TabPFN model weights |
|
| 138 |
+
| `config` | Training configuration (hyperparameters, data settings) |
|
| 139 |
+
| `history` | Training history (loss, metrics per epoch) |
|
| 140 |
+
| `step1_path` | Path to the Step 1 model used as initialization |
|
| 141 |
+
|
| 142 |
+
## Limitations
|
| 143 |
+
|
| 144 |
+
- Models were trained on species from 6 specific geographic regions and may not generalize to other regions without additional finetuning
|
| 145 |
+
- Performance varies by species; species with very few presences may have lower accuracy
|
| 146 |
+
- The spatial variant has lower validation metrics due to the inherently harder task of spatial extrapolation
|
| 147 |
+
- Requires the `tabpfn` Python package (v2) for inference
|
| 148 |
+
- Categorical variable handling requires proper setup (see project documentation)
|
| 149 |
+
|
| 150 |
+
## Citation
|
| 151 |
+
|
| 152 |
+
If you use these models, please cite the accompanying paper:
|
| 153 |
+
|
| 154 |
+
```bibtex
|
| 155 |
+
@article{dinnage2026niche,
|
| 156 |
+
title={A Niche in the Machine: The Promise of AI Foundation Models for Species Distribution Modeling},
|
| 157 |
+
author={Dinnage, Russell and Warren, Dan L.},
|
| 158 |
+
year={2026},
|
| 159 |
+
doi={10.32942/X2VQ10},
|
| 160 |
+
journal={EcoEvoRxiv},
|
| 161 |
+
url={https://ecoevorxiv.org/repository/view/11797/}
|
| 162 |
+
}
|
| 163 |
+
```
|
| 164 |
+
|
| 165 |
+
Please also cite the original TabPFN paper:
|
| 166 |
+
|
| 167 |
+
```bibtex
|
| 168 |
+
@article{hollmann2025tabpfn,
|
| 169 |
+
title={Accurate Predictions on Small Data with a Tabular Foundation Model},
|
| 170 |
+
author={Hollmann, Noah and M{\"u}ller, Samuel and Purucker, Lennart and
|
| 171 |
+
Krishnakumar, Arjun and K{\"o}rfer, Max and Hoo, Shi Bin and
|
| 172 |
+
Schirrmeister, Robin Tibor and Hutter, Frank},
|
| 173 |
+
journal={Nature},
|
| 174 |
+
year={2025},
|
| 175 |
+
publisher={Nature Publishing Group}
|
| 176 |
+
}
|
| 177 |
+
```
|
| 178 |
+
|
| 179 |
+
## License
|
| 180 |
+
|
| 181 |
+
These finetuned model weights are distributed under the [Prior Labs License v1.1](LICENSE), consistent with the base TabPFN model license. See the LICENSE file for full terms.
|
| 182 |
+
|
| 183 |
+
## Links
|
| 184 |
+
|
| 185 |
+
- [TabPFN-SDM GitHub Repository](https://github.com/rdinnager/TabPFN-SDM)
|
| 186 |
+
- [Base TabPFN Model](https://huggingface.co/Prior-Labs/TabPFN-v2-clf)
|
| 187 |
+
- [TabPFN GitHub](https://github.com/PriorLabs/TabPFN)
|
config.json
ADDED
|
@@ -0,0 +1,57 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"model_type": "tabpfn-finetuned",
|
| 3 |
+
"base_model": "Prior-Labs/TabPFN-v2-clf",
|
| 4 |
+
"task": "binary-classification",
|
| 5 |
+
"domain": "species-distribution-modeling",
|
| 6 |
+
"variants": {
|
| 7 |
+
"nonspatial": {
|
| 8 |
+
"filename": "tabpfn-sdm-nonspatial.pt",
|
| 9 |
+
"description": "Standard train/test split evaluation",
|
| 10 |
+
"step1_epochs": 40,
|
| 11 |
+
"step2_epochs": 100,
|
| 12 |
+
"final_val_roc_auc": 0.747,
|
| 13 |
+
"final_val_pr_auc": 0.261,
|
| 14 |
+
"final_train_loss": 0.460,
|
| 15 |
+
"final_val_loss": 3.429
|
| 16 |
+
},
|
| 17 |
+
"spatial": {
|
| 18 |
+
"filename": "tabpfn-sdm-spatial.pt",
|
| 19 |
+
"description": "Spatially-separated (10km buffer) evaluation",
|
| 20 |
+
"step1_epochs": 25,
|
| 21 |
+
"step2_epochs": 50,
|
| 22 |
+
"final_val_roc_auc": 0.653,
|
| 23 |
+
"final_val_pr_auc": 0.144,
|
| 24 |
+
"final_train_loss": 0.470,
|
| 25 |
+
"final_val_loss": 5.469
|
| 26 |
+
}
|
| 27 |
+
},
|
| 28 |
+
"training": {
|
| 29 |
+
"optimizer": "AdamW",
|
| 30 |
+
"lr_schedule": "OneCycleLR",
|
| 31 |
+
"step1_learning_rate": 1e-5,
|
| 32 |
+
"step2_learning_rate": 1e-6,
|
| 33 |
+
"max_train_size_per_subbatch": 1500,
|
| 34 |
+
"max_test_size": 1500,
|
| 35 |
+
"n_estimators_training": 2,
|
| 36 |
+
"n_estimators_inference": 8,
|
| 37 |
+
"seed": 32639,
|
| 38 |
+
"species_split_seed": 12345
|
| 39 |
+
},
|
| 40 |
+
"data": {
|
| 41 |
+
"total_species": 226,
|
| 42 |
+
"finetune_species_fraction": 0.625,
|
| 43 |
+
"validation_species_fraction": 0.075,
|
| 44 |
+
"test_species_fraction": 0.30,
|
| 45 |
+
"regions": ["AWT", "NSW", "CAN", "NZ", "SA", "SWI"],
|
| 46 |
+
"categorical_variables": {
|
| 47 |
+
"CAN": ["ontveg"],
|
| 48 |
+
"NSW": ["vegsys"],
|
| 49 |
+
"NZ": ["age", "toxicats"],
|
| 50 |
+
"SWI": ["calc"]
|
| 51 |
+
}
|
| 52 |
+
},
|
| 53 |
+
"checkpoint_format": {
|
| 54 |
+
"keys": ["model_state_dict", "config", "history", "step1_path"],
|
| 55 |
+
"framework": "pytorch"
|
| 56 |
+
}
|
| 57 |
+
}
|
tabpfn-sdm-nonspatial.pt
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:e08fc4aa91cc4364490530c90418bc3152e60212a059852694b6190ba6f41f90
|
| 3 |
+
size 42945484
|
tabpfn-sdm-spatial.pt
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:eafaf07012dd3c18385a7a6b2e7303b775ba8e891d96e2a3c45bd722a63cb295
|
| 3 |
+
size 42945010
|
training_logs/tabpfn-sdm-nonspatial_training_log.csv
ADDED
|
@@ -0,0 +1,101 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
"epoch","train_loss","val_loss","val_auc_roc","val_pr_auc","val_cor","focal_gamma","n_batches","r_prep_time_sec","python_train_time_sec","total_epoch_time_min","timestamp"
|
| 2 |
+
1,0.70441301236926,3.7138137600601,0.722795626254933,0.26320519166281,0.138433813643056,2,710,15.8797688484192,227.377474308014,6.58859169880549,"2025-12-12 12:58:08"
|
| 3 |
+
2,0.686886175973734,3.723429993849,0.723381620826008,0.264067446669922,0.139465191575812,2,710,15.9619739055634,230.581122636795,6.66592043240865,"2025-12-12 13:04:49"
|
| 4 |
+
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| 80 |
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| 81 |
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80,0.4613348260758,3.40470037337474,0.746833965765376,0.261814417619259,0.161484528087911,2,710,15.8818180561066,232.111558675766,6.67350888649623,"2025-12-12 21:57:47"
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| 83 |
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82,0.459712649867411,3.48035250797621,0.74682208189864,0.261688136749324,0.159393108836993,2,710,15.7246248722076,232.708401679993,6.69849454959234,"2025-12-12 22:11:14"
|
| 84 |
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83,0.464448845360271,3.42817248097471,0.74750676485349,0.262390424793913,0.161546423629696,2,710,15.7323391437531,231.27207159996,6.65755341847738,"2025-12-12 22:17:55"
|
| 85 |
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84,0.458935775725879,3.41307875708668,0.746722901943343,0.261487226327422,0.161144588396094,2,710,15.836364030838,231.491606712341,6.66201210021973,"2025-12-12 22:24:36"
|
| 86 |
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|
| 87 |
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86,0.45868224671609,3.4561471656663,0.747297683839538,0.261233499455345,0.159556087012702,2,710,15.832612991333,231.574813842773,6.66588671604792,"2025-12-12 22:38:00"
|
| 88 |
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87,0.459387787034355,3.38757977214803,0.747427608727181,0.26165324275036,0.161984284611895,2,710,15.8971889019012,231.431454658508,6.66172498464584,"2025-12-12 22:44:41"
|
| 89 |
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88,0.4569021473783,3.38783105850505,0.747585448299492,0.261544649363922,0.161374291875187,2,710,15.8833720684052,232.657075643539,6.69007583459218,"2025-12-12 22:51:24"
|
| 90 |
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89,0.460356021109103,3.442882618736,0.747265733275473,0.261595206919176,0.159548275897913,2,710,15.818176984787,232.514173746109,6.68139934937159,"2025-12-12 22:58:06"
|
| 91 |
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90,0.459590368609036,3.43527113646123,0.747236077006196,0.261344590993053,0.160401176655981,2,710,15.7010269165039,232.50125336647,6.67587133248647,"2025-12-12 23:04:49"
|
| 92 |
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91,0.457958681091771,3.42525041915003,0.747235693840369,0.26128469575744,0.160902491837066,2,710,15.7348639965057,231.845048904419,6.68266331752141,"2025-12-12 23:11:31"
|
| 93 |
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92,0.456442553923846,3.4402243390839,0.747154228524084,0.261370018096797,0.160259626714866,2,710,15.7713499069214,232.524834394455,6.68772106568019,"2025-12-12 23:18:14"
|
| 94 |
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93,0.459385885862293,3.42611026187274,0.747168581877537,0.261211679557764,0.160638558024333,2,710,15.9260370731354,232.656718730927,6.683012119929,"2025-12-12 23:24:56"
|
| 95 |
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94,0.457725129781527,3.42628296008338,0.747091093476446,0.261332550197668,0.16063254568314,2,710,15.9059100151062,232.370390176773,6.68317795197169,"2025-12-12 23:31:39"
|
| 96 |
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95,0.456557899292453,3.42739483427238,0.747129722056298,0.261212414353608,0.160720272417202,2,710,15.9731149673462,231.805194616318,6.67113851706187,"2025-12-12 23:38:21"
|
| 97 |
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96,0.455238960028797,3.43002117721347,0.74716674133509,0.261329639252814,0.160504456074616,2,710,16.0211191177368,232.905576944351,6.69427613417308,"2025-12-12 23:45:04"
|
| 98 |
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97,0.455601565361443,3.42799792921257,0.747137633896665,0.261385305230519,0.160553583851426,2,710,15.7126770019531,232.351318359375,6.68302076657613,"2025-12-12 23:51:47"
|
| 99 |
+
98,0.460694668691238,3.42850937678093,0.747140628478925,0.261382215203992,0.160529541368984,2,710,15.7605810165405,232.272925376892,6.67565601666768,"2025-12-12 23:58:29"
|
| 100 |
+
99,0.46207554947493,3.42854479678057,0.747145599352579,0.261375521468433,0.160533349449527,2,710,15.7442438602448,233.674478054047,6.70384161472321,"2025-12-13 00:05:13"
|
| 101 |
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100,0.459558154515345,3.42854107149168,0.747145379328387,0.261374645321252,0.160533448282617,2,710,15.8717939853668,232.025103330612,6.6777704834938,"2025-12-13 00:11:55"
|
training_logs/tabpfn-sdm-nonspatial_training_plot.png
ADDED
|
Git LFS Details
|
training_logs/tabpfn-sdm-spatial_training_log.csv
ADDED
|
@@ -0,0 +1,101 @@
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| 1 |
+
"epoch","train_loss","val_loss","val_auc_roc","val_pr_auc","val_cor","focal_gamma","n_batches","r_prep_time_sec","python_train_time_sec","total_epoch_time_min","timestamp"
|
| 2 |
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1,0.66133011503766,5.43197786700644,0.670745610448307,0.139653152608028,0.119366973009271,2,600,0.59018611907959,154.012180805206,3.65113788445791,"2025-12-13 01:56:28"
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| 3 |
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2,0.648822891910871,5.48483700468314,0.673690048391566,0.142021084248995,0.123406561842589,2,600,0.524244070053101,154.167514562607,3.65423013369242,"2025-12-13 02:00:09"
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| 4 |
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3,0.637041368794938,5.51770436180041,0.67412170333094,0.142030206333121,0.126343839253727,2,600,0.495769023895264,153.892928123474,3.64403801759084,"2025-12-13 02:03:48"
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| 5 |
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4,0.628081634634485,5.51713122177082,0.673359618822212,0.14212787367446,0.128529743061048,2,600,0.562830924987793,156.31062078476,3.69919883410136,"2025-12-13 02:07:32"
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| 6 |
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| 7 |
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6,0.620557555866738,5.47772782526128,0.671491059008382,0.143686993242808,0.131059519840359,2,600,0.540592908859253,156.581949234009,3.69372956752777,"2025-12-13 02:14:56"
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| 8 |
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| 9 |
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| 10 |
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9,0.606503394494454,5.44025921281699,0.668898739191334,0.145053770416534,0.128364962448761,2,600,0.522512912750244,156.200025558472,3.6852768500646,"2025-12-13 02:26:05"
|
| 11 |
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10,0.606667295557757,5.44302411981601,0.667941637600183,0.144995088525137,0.127145417507384,2,600,0.514711141586304,156.025696992874,3.68507664998372,"2025-12-13 02:29:48"
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| 12 |
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11,0.601770934058974,5.42590594976719,0.666964505201599,0.14332761633326,0.128742250131897,2,600,0.50373911857605,156.800369262695,3.69688893556595,"2025-12-13 02:33:30"
|
| 13 |
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12,0.602963122576475,5.40723882616095,0.665250151906971,0.143416388799035,0.126661364990966,2,600,0.492477893829346,156.256901264191,3.70220110019048,"2025-12-13 02:37:14"
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| 14 |
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|
| 15 |
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| 16 |
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| 17 |
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| 18 |
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|
| 19 |
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|
| 20 |
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|
| 21 |
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|
| 22 |
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|
| 23 |
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| 24 |
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| 25 |
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|
| 26 |
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25,0.556475588710358,5.5102384226365,0.656020668163563,0.139160175437283,0.110659916927053,2,600,0.498593807220459,156.111125707626,3.68619733254115,"2025-12-13 03:25:32"
|
| 27 |
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|
| 28 |
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27,0.547843172339102,5.50559636309354,0.657539399201775,0.134392383148627,0.104425983672748,2,600,0.507617950439453,156.529401063919,3.71110899845759,"2025-12-13 03:32:59"
|
| 29 |
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28,0.545411957204342,5.48809357099035,0.659134121465411,0.137974915451302,0.108987667914184,2,600,0.489403963088989,156.075370550156,3.68631529808044,"2025-12-13 03:36:41"
|
| 30 |
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29,0.543104917829235,5.44178022755263,0.658637950812583,0.139465990060233,0.110350640743571,2,600,0.534718990325928,157.512508630753,3.71154086589813,"2025-12-13 03:40:25"
|
| 31 |
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30,0.537606932359437,5.4951791481269,0.655987110414495,0.137650961648043,0.106285113890833,2,600,0.478991031646729,157.366530179977,3.70387683312098,"2025-12-13 03:44:08"
|
| 32 |
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|
| 33 |
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|
| 34 |
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33,0.535221464534601,5.54774567454018,0.65372824516165,0.136033613879294,0.108624855034052,2,600,0.495734930038452,157.725230693817,3.71225751638412,"2025-12-13 03:55:18"
|
| 35 |
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34,0.530982256674518,5.63552286329925,0.655244908787125,0.143074195985396,0.105320852065119,2,600,0.498605012893677,158.276722669601,3.72004066705704,"2025-12-13 03:59:02"
|
| 36 |
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35,0.525531236045063,5.52095707279072,0.657491510053064,0.140345936915565,0.10446397252887,2,600,0.504189968109131,157.913911342621,3.7224933664004,"2025-12-13 04:02:47"
|
| 37 |
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36,0.529042201675475,5.51886706447101,0.658597833432809,0.138463594738983,0.106844259424934,2,600,0.516534090042114,156.342707395554,3.68975656827291,"2025-12-13 04:06:29"
|
| 38 |
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37,0.525630223847305,5.36506497373415,0.658536467628414,0.140203155999235,0.100876386231405,2,600,0.521502017974854,157.498282432556,3.70863480170568,"2025-12-13 04:10:13"
|
| 39 |
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38,0.519716916702067,5.5086159815161,0.659014529279065,0.139915215625088,0.101619957244396,2,600,0.508012056350708,157.344186306,3.70586160024007,"2025-12-13 04:13:56"
|
| 40 |
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39,0.513466083373254,5.48253108174259,0.660361109782894,0.141398106446374,0.103276408803117,2,600,0.494580984115601,155.781613111496,3.6984872341156,"2025-12-13 04:17:39"
|
| 41 |
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40,0.517816905233388,5.45498836513626,0.656196773781999,0.138736489762692,0.103918677187455,2,600,0.50292706489563,156.170919895172,3.68679181734721,"2025-12-13 04:21:22"
|
| 42 |
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41,0.518740259129554,5.3903934150448,0.659446635440367,0.140108858912503,0.10458510369454,2,600,0.516641139984131,157.835290670395,3.71502739985784,"2025-12-13 04:25:06"
|
| 43 |
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42,0.513920828206465,5.40938836159856,0.660665408176331,0.138511340596386,0.0984599091908225,2,600,0.499431133270264,157.980466365814,3.71510881582896,"2025-12-13 04:28:50"
|
| 44 |
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43,0.508603686150163,5.53116702751797,0.658361876332115,0.142049579041706,0.102729573041361,2,600,0.507328987121582,156.763083934784,3.70455094973246,"2025-12-13 04:32:33"
|
| 45 |
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44,0.507055316474289,5.38513635272469,0.664642702958144,0.142470212314554,0.105892574377815,2,600,0.490265846252441,156.693947553635,3.69824121395747,"2025-12-13 04:36:16"
|
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45,0.506592035017287,5.49175521412687,0.661178308072416,0.14276769770409,0.101985045334578,2,600,0.501605987548828,158.408622980118,3.72330698172251,"2025-12-13 04:40:01"
|
| 47 |
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| 48 |
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|
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48,0.503654527623827,5.47871458717328,0.656646326830194,0.141148867703291,0.100237759445202,2,600,0.515244960784912,157.101129770279,3.70066798528035,"2025-12-13 04:51:10"
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| 50 |
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|
| 51 |
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50,0.497407663296908,5.44465786191118,0.661399368914047,0.143988881029422,0.101958156385721,2,600,0.50278902053833,157.112701416016,3.70234641631444,"2025-12-13 04:58:38"
|
| 52 |
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51,0.49754767392762,5.42578225592988,0.657699321546058,0.137707683098454,0.10321195063831,2,600,0.492694854736328,157.207679033279,3.7047663807869,"2025-12-13 05:02:21"
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| 53 |
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| 54 |
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53,0.495304858793194,5.41205035775821,0.658384026753435,0.142593089750602,0.0965027877732891,2,600,0.480426073074341,152.960811853409,3.61255061626434,"2025-12-13 05:09:38"
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54,0.49674395384267,5.4087408483338,0.656135371176494,0.141402634716936,0.0927304253074873,2,600,0.473854064941406,152.637813091278,3.61672813495,"2025-12-13 05:13:16"
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| 56 |
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55,0.494859989536926,5.33761225865395,0.657686462872466,0.141715158959485,0.096101137651406,2,600,0.481580972671509,151.572769641876,3.59472594658534,"2025-12-13 05:16:53"
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| 58 |
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57,0.491601563319564,5.46484153268307,0.659571338726311,0.142396550436263,0.0995766751458575,2,600,0.486103057861328,152.32784485817,3.60749226411184,"2025-12-13 05:24:09"
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| 59 |
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| 60 |
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| 61 |
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| 62 |
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| 63 |
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62,0.486339424241645,5.47892737982132,0.656222996091742,0.14172565592903,0.0979328798812485,2,600,0.482625007629395,151.704662799835,3.59565803209941,"2025-12-13 05:42:17"
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| 65 |
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| 66 |
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65,0.48154096238936,5.41775244971073,0.651903336458823,0.142425643356855,0.0983947071705921,2,600,0.516759872436523,151.467621326447,3.61068049669266,"2025-12-13 05:53:09"
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| 67 |
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66,0.483554791333154,5.49972801911735,0.65261919233216,0.139394198966061,0.0934307662873996,2,600,0.501183986663818,151.625838041306,3.59279083013535,"2025-12-13 05:56:46"
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| 68 |
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67,0.480414719063168,5.5424667794416,0.650166095593046,0.139076269674139,0.0943678153544261,2,600,0.495907068252563,151.623754501343,3.59529131650925,"2025-12-13 06:00:23"
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| 69 |
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68,0.481778728424882,5.52818347572783,0.653343944589792,0.140718323146849,0.0942583563333215,2,600,0.497418165206909,151.604543209076,3.5971097668012,"2025-12-13 06:04:00"
|
| 70 |
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69,0.478732469504078,5.50152213517391,0.654070112959593,0.141458015924662,0.0957264519128124,2,600,0.486480951309204,151.259647369385,3.5908268849055,"2025-12-13 06:07:37"
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| 71 |
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70,0.481897206058105,5.49433281842778,0.654824154820738,0.142231114478726,0.0996254776009345,2,600,0.494326114654541,151.575616359711,3.59315555095673,"2025-12-13 06:11:14"
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| 72 |
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71,0.479115151216586,5.52685291984992,0.654179136111562,0.139145567782715,0.0944531893830701,2,600,0.508790016174316,152.569899559021,3.61246101458867,"2025-12-13 06:14:52"
|
| 73 |
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72,0.478682938686882,5.53518756068611,0.654115631783108,0.139930542501791,0.0971041731461897,2,600,0.487629890441895,151.230334043503,3.59286016623179,"2025-12-13 06:18:29"
|
| 74 |
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73,0.471463195784017,5.49309100306665,0.654924747940641,0.140774605690035,0.0942635046306534,2,600,0.497917890548706,151.572294235229,3.59580980141958,"2025-12-13 06:22:06"
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| 75 |
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74,0.479630691539496,5.53563929663218,0.654084084582525,0.140642018008212,0.0942642547421547,2,600,0.491114854812622,151.610561609268,3.59238001505534,"2025-12-13 06:25:43"
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| 76 |
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75,0.474328287538762,5.51505848919406,0.654941724975066,0.140974605960947,0.097092377415075,2,600,0.49444580078125,152.238273620605,3.60468896627426,"2025-12-13 06:29:21"
|
| 77 |
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76,0.478522763488193,5.45531566969372,0.653768509791882,0.14134835958622,0.0951731332549127,2,600,0.531599044799805,152.182258605957,3.60261193116506,"2025-12-13 06:32:58"
|
| 78 |
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77,0.47531782226637,5.50344132568036,0.653572397634421,0.142549161433778,0.0943440180178006,2,600,0.490708112716675,152.517019510269,3.6089008529981,"2025-12-13 06:36:36"
|
| 79 |
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78,0.479323625164106,5.41824103187086,0.654387092149465,0.141513689384534,0.0954889076627389,2,600,0.490542888641357,153.879976034164,3.6311515490214,"2025-12-13 06:40:16"
|
| 80 |
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79,0.474868357454737,5.47943336367112,0.655600631216014,0.142785874254546,0.0934664045904071,2,600,0.502581834793091,152.169291257858,3.60855063199997,"2025-12-13 06:43:54"
|
| 81 |
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80,0.470489296568558,5.52708409539493,0.653310393746797,0.142310658502511,0.0930018113649282,2,600,0.49401593208313,151.436303138733,3.5923304160436,"2025-12-13 06:47:31"
|
| 82 |
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81,0.469071060256101,5.48144353975817,0.657144837413458,0.145281388301393,0.0965775381790437,2,600,0.516509056091309,151.811748743057,3.59656045039495,"2025-12-13 06:51:08"
|
| 83 |
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82,0.47797984091565,5.52392360277687,0.655774224256036,0.141971082624762,0.0961160643141496,2,600,0.505538940429688,152.749043703079,3.6112105846405,"2025-12-13 06:54:46"
|
| 84 |
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83,0.471493759794782,5.50271597741301,0.653042194206227,0.140544094240847,0.0923955410668171,2,600,0.473028898239136,151.791126966476,3.60136553049088,"2025-12-13 06:58:23"
|
| 85 |
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84,0.471767753356447,5.44343611787521,0.652215486612565,0.139930394894934,0.0923909712430609,2,600,0.501204013824463,151.04732966423,3.58508960008621,"2025-12-13 07:02:00"
|
| 86 |
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85,0.47179202428398,5.46103367689546,0.653163210720166,0.140848904477437,0.0922080499683235,2,600,0.486063957214355,152.141865968704,3.60137846469879,"2025-12-13 07:05:37"
|
| 87 |
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86,0.47063261874641,5.45657373040291,0.652604631540288,0.140618577991799,0.0909138892945543,2,600,0.508774042129517,152.026038646698,3.6014527519544,"2025-12-13 07:09:15"
|
| 88 |
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87,0.476905542405633,5.4948822362175,0.653160966352203,0.141226366326622,0.0935003497948479,2,600,0.514676094055176,151.179193973541,3.58429301579793,"2025-12-13 07:12:51"
|
| 89 |
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88,0.47105185949554,5.45107485909702,0.652339161507982,0.140460030228736,0.0934667897805594,2,600,0.512884140014648,153.288183927536,3.6241225361824,"2025-12-13 07:16:30"
|
| 90 |
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89,0.471332247992978,5.49208364767829,0.65341537177867,0.14194719166837,0.0934802059611318,2,600,0.515537977218628,154.02739071846,3.63230718374252,"2025-12-13 07:20:10"
|
| 91 |
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90,0.475899318770195,5.48341425514403,0.65316813019738,0.142225110833453,0.0941129142045765,2,600,0.485558986663818,152.935579538345,3.63379408121109,"2025-12-13 07:23:49"
|
| 92 |
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91,0.473068527098124,5.48949630355076,0.653149827204797,0.143775608435297,0.0935470860437408,2,600,0.494906187057495,152.952659368515,3.61937523682912,"2025-12-13 07:27:28"
|
| 93 |
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92,0.475191683045899,5.48781158817513,0.652837273608913,0.143761371678053,0.0935187943090073,2,600,0.494907855987549,151.568606376648,3.59409033060074,"2025-12-13 07:31:05"
|
| 94 |
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93,0.474412677118865,5.48255915684138,0.652587326065714,0.142224617805542,0.093624721681551,2,600,0.50605297088623,152.190205335617,3.60584636529287,"2025-12-13 07:34:43"
|
| 95 |
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94,0.469609299359533,5.46008104475894,0.652708422709084,0.141971656643633,0.0930406801485191,2,600,0.487737894058228,155.808158874512,3.67936386664708,"2025-12-13 07:38:25"
|
| 96 |
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95,0.466914270315319,5.46152261481574,0.653125108186309,0.14330294254704,0.0930410865547558,2,600,0.492125988006592,152.196537733078,3.60374881426493,"2025-12-13 07:42:02"
|
| 97 |
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96,0.473520026647796,5.46618076038482,0.653401186718223,0.143531116506513,0.0933046634295965,2,600,0.48497200012207,151.965482950211,3.60298693180084,"2025-12-13 07:45:40"
|
| 98 |
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97,0.470486604239171,5.46828531689969,0.653319558571201,0.14356458319972,0.0933075899637398,2,600,0.512951135635376,152.062354803085,3.62046826680501,"2025-12-13 07:49:19"
|
| 99 |
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98,0.467022713188392,5.46927067228876,0.653274724648638,0.143522367954736,0.0932833933583132,2,600,0.512506008148193,151.960008621216,3.60200371344884,"2025-12-13 07:52:56"
|
| 100 |
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99,0.47081042027877,5.46934212184307,0.653280584325838,0.143522741728054,0.0932870779666935,2,600,0.522125005722046,153.606253623962,3.6277189652125,"2025-12-13 07:56:35"
|
| 101 |
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100,0.470362719738235,5.4693352100158,0.653282841179859,0.143523408596443,0.0932871951154787,2,600,0.509258031845093,153.59902381897,3.62499938408534,"2025-12-13 08:00:14"
|
training_logs/tabpfn-sdm-spatial_training_plot.png
ADDED
|
Git LFS Details
|