sae-lens 6.0.0rc4__py3-none-any.whl → 6.1.0__py3-none-any.whl

sae_lens/__init__.py

@@ -1,5 +1,5 @@
 # ruff: noqa: E402
-__version__ = "6.0.0-rc.4"
+__version__ = "6.1.0"
 
 import logging
 
@@ -7,6 +7,8 @@ logger = logging.getLogger(__name__)
 
 from sae_lens.saes import (
     SAE,
+    BatchTopKTrainingSAE,
+    BatchTopKTrainingSAEConfig,
     GatedSAE,
     GatedSAEConfig,
     GatedTrainingSAE,
@@ -85,6 +87,8 @@ __all__ = [
     "JumpReLUTrainingSAEConfig",
     "SAETrainingRunner",
     "LoggingConfig",
+    "BatchTopKTrainingSAE",
+    "BatchTopKTrainingSAEConfig",
 ]
 
 
@@ -96,3 +100,6 @@ register_sae_class("topk", TopKSAE, TopKSAEConfig)
 register_sae_training_class("topk", TopKTrainingSAE, TopKTrainingSAEConfig)
 register_sae_class("jumprelu", JumpReLUSAE, JumpReLUSAEConfig)
 register_sae_training_class("jumprelu", JumpReLUTrainingSAE, JumpReLUTrainingSAEConfig)
+register_sae_training_class(
+    "batchtopk", BatchTopKTrainingSAE, BatchTopKTrainingSAEConfig
+)

sae_lens/config.py

@@ -1,6 +1,5 @@
 import json
 import math
-import os
 from dataclasses import asdict, dataclass, field
 from pathlib import Path
 from typing import TYPE_CHECKING, Any, Generic, Literal, TypeVar, cast
@@ -353,28 +352,6 @@ class LanguageModelSAERunnerConfig(Generic[T_TRAINING_SAE_CONFIG]):
         d["act_store_device"] = str(self.act_store_device)
         return d
 
-    def to_json(self, path: str) -> None:
-        if not os.path.exists(os.path.dirname(path)):
-            os.makedirs(os.path.dirname(path))
-
-        with open(path + "cfg.json", "w") as f:
-            json.dump(self.to_dict(), f, indent=2)
-
-    @classmethod
-    def from_json(cls, path: str) -> "LanguageModelSAERunnerConfig[Any]":
-        with open(path + "cfg.json") as f:
-            cfg = json.load(f)
-
-        # ensure that seqpos slices is a tuple
-        # Ensure seqpos_slice is a tuple
-        if "seqpos_slice" in cfg:
-            if isinstance(cfg["seqpos_slice"], list):
-                cfg["seqpos_slice"] = tuple(cfg["seqpos_slice"])
-            elif not isinstance(cfg["seqpos_slice"], tuple):
-                cfg["seqpos_slice"] = (cfg["seqpos_slice"],)
-
-        return cls(**cfg)
-
     def to_sae_trainer_config(self) -> "SAETrainerConfig":
         return SAETrainerConfig(
             n_checkpoints=self.n_checkpoints,

sae_lens/constants.py

@@ -16,5 +16,6 @@ SPARSITY_FILENAME = "sparsity.safetensors"
 SAE_WEIGHTS_FILENAME = "sae_weights.safetensors"
 SAE_CFG_FILENAME = "cfg.json"
 RUNNER_CFG_FILENAME = "runner_cfg.json"
+SPARSIFY_WEIGHTS_FILENAME = "sae.safetensors"
 ACTIVATIONS_STORE_STATE_FILENAME = "activations_store_state.safetensors"
 ACTIVATION_SCALER_CFG_FILENAME = "activation_scaler.json"

sae_lens/evals.py

@@ -769,17 +769,6 @@ def nested_dict() -> defaultdict[Any, Any]:
     return defaultdict(nested_dict)
 
 
-def dict_to_nested(flat_dict: dict[str, Any]) -> defaultdict[Any, Any]:
-    nested = nested_dict()
-    for key, value in flat_dict.items():
-        parts = key.split("/")
-        d = nested
-        for part in parts[:-1]:
-            d = d[part]
-        d[parts[-1]] = value
-    return nested
-
-
 def multiple_evals(
     sae_regex_pattern: str,
     sae_block_pattern: str,

sae_lens/loading/pretrained_sae_loaders.py

@@ -16,6 +16,7 @@ from sae_lens.constants import (
     DTYPE_MAP,
     SAE_CFG_FILENAME,
     SAE_WEIGHTS_FILENAME,
+    SPARSIFY_WEIGHTS_FILENAME,
     SPARSITY_FILENAME,
 )
 from sae_lens.loading.pretrained_saes_directory import (
@@ -248,7 +249,7 @@ def handle_pre_6_0_config(cfg_dict: dict[str, Any]) -> dict[str, Any]:
     config_class = get_sae_class(architecture)[1]
 
     sae_cfg_dict = filter_valid_dataclass_fields(new_cfg, config_class)
-    if architecture == "topk":
+    if architecture == "topk" and "activation_fn_kwargs" in new_cfg:
         sae_cfg_dict["k"] = new_cfg["activation_fn_kwargs"]["k"]
 
     sae_cfg_dict["metadata"] = {
@@ -530,11 +531,20 @@ def get_llama_scope_config_from_hf(
     # Model specific parameters
     model_name, d_in = "meta-llama/Llama-3.1-8B", old_cfg_dict["d_model"]
 
+    # Get norm scaling factor to rescale jumprelu threshold.
+    # We need this because sae.fold_activation_norm_scaling_factor folds scaling norm into W_enc.
+    # This requires jumprelu threshold to be scaled in the same way
+    norm_scaling_factor = (
+        d_in**0.5 / old_cfg_dict["dataset_average_activation_norm"]["in"]
+    )
+
     cfg_dict = {
         "architecture": "jumprelu",
-        "jump_relu_threshold": old_cfg_dict["jump_relu_threshold"],
+        "jump_relu_threshold": old_cfg_dict["jump_relu_threshold"]
+        * norm_scaling_factor,
         # We use a scalar jump_relu_threshold for all features
         # This is different from Gemma Scope JumpReLU SAEs.
+        # Scaled with norm_scaling_factor to match sae.fold_activation_norm_scaling_factor
         "d_in": d_in,
         "d_sae": old_cfg_dict["d_sae"],
         "dtype": "bfloat16",
@@ -942,6 +952,146 @@ def llama_scope_r1_distill_sae_huggingface_loader(
     return cfg_dict, state_dict, log_sparsity
 
 
+def get_sparsify_config_from_hf(
+    repo_id: str,
+    folder_name: str,
+    device: str,
+    force_download: bool = False,
+    cfg_overrides: dict[str, Any] | None = None,
+) -> dict[str, Any]:
+    cfg_filename = f"{folder_name}/{SAE_CFG_FILENAME}"
+    cfg_path = hf_hub_download(
+        repo_id,
+        filename=cfg_filename,
+        force_download=force_download,
+    )
+    sae_path = Path(cfg_path).parent
+    return get_sparsify_config_from_disk(
+        sae_path, device=device, cfg_overrides=cfg_overrides
+    )
+
+
+def get_sparsify_config_from_disk(
+    path: str | Path,
+    device: str | None = None,
+    cfg_overrides: dict[str, Any] | None = None,
+) -> dict[str, Any]:
+    path = Path(path)
+
+    with open(path / SAE_CFG_FILENAME) as f:
+        old_cfg_dict = json.load(f)
+
+    config_path = path.parent / "config.json"
+    if config_path.exists():
+        with open(config_path) as f:
+            config_dict = json.load(f)
+    else:
+        config_dict = {}
+
+    folder_name = path.name
+    if folder_name == "embed_tokens":
+        hook_name, layer = "hook_embed", 0
+    else:
+        match = re.search(r"layers[._](\d+)", folder_name)
+        if match is None:
+            raise ValueError(f"Unrecognized Sparsify folder: {folder_name}")
+        layer = int(match.group(1))
+        hook_name = f"blocks.{layer}.hook_resid_post"
+
+    cfg_dict: dict[str, Any] = {
+        "architecture": "standard",
+        "d_in": old_cfg_dict["d_in"],
+        "d_sae": old_cfg_dict["d_in"] * old_cfg_dict["expansion_factor"],
+        "dtype": "bfloat16",
+        "device": device or "cpu",
+        "model_name": config_dict.get("model", path.parts[-2]),
+        "hook_name": hook_name,
+        "hook_layer": layer,
+        "hook_head_index": None,
+        "activation_fn_str": "topk",
+        "activation_fn_kwargs": {
+            "k": old_cfg_dict["k"],
+            "signed": old_cfg_dict.get("signed", False),
+        },
+        "apply_b_dec_to_input": not old_cfg_dict.get("normalize_decoder", False),
+        "dataset_path": config_dict.get(
+            "dataset", "togethercomputer/RedPajama-Data-1T-Sample"
+        ),
+        "context_size": config_dict.get("ctx_len", 2048),
+        "finetuning_scaling_factor": False,
+        "sae_lens_training_version": None,
+        "prepend_bos": True,
+        "dataset_trust_remote_code": True,
+        "normalize_activations": "none",
+        "neuronpedia_id": None,
+    }
+
+    if cfg_overrides:
+        cfg_dict.update(cfg_overrides)
+
+    return cfg_dict
+
+
+def sparsify_huggingface_loader(
+    repo_id: str,
+    folder_name: str,
+    device: str = "cpu",
+    force_download: bool = False,
+    cfg_overrides: dict[str, Any] | None = None,
+) -> tuple[dict[str, Any], dict[str, torch.Tensor], None]:
+    weights_filename = f"{folder_name}/{SPARSIFY_WEIGHTS_FILENAME}"
+    sae_path = hf_hub_download(
+        repo_id,
+        filename=weights_filename,
+        force_download=force_download,
+    )
+    cfg_dict, state_dict = sparsify_disk_loader(
+        Path(sae_path).parent, device=device, cfg_overrides=cfg_overrides
+    )
+    return cfg_dict, state_dict, None
+
+
+def sparsify_disk_loader(
+    path: str | Path,
+    device: str = "cpu",
+    cfg_overrides: dict[str, Any] | None = None,
+) -> tuple[dict[str, Any], dict[str, torch.Tensor]]:
+    cfg_dict = get_sparsify_config_from_disk(path, device, cfg_overrides)
+
+    weight_path = Path(path) / SPARSIFY_WEIGHTS_FILENAME
+    state_dict_loaded = load_file(weight_path, device=device)
+
+    dtype = DTYPE_MAP[cfg_dict["dtype"]]
+
+    W_enc = (
+        state_dict_loaded["W_enc"]
+        if "W_enc" in state_dict_loaded
+        else state_dict_loaded["encoder.weight"].T
+    ).to(dtype)
+
+    if "W_dec" in state_dict_loaded:
+        W_dec = state_dict_loaded["W_dec"].T.to(dtype)
+    else:
+        W_dec = state_dict_loaded["decoder.weight"].T.to(dtype)
+
+    if "b_enc" in state_dict_loaded:
+        b_enc = state_dict_loaded["b_enc"].to(dtype)
+    elif "encoder.bias" in state_dict_loaded:
+        b_enc = state_dict_loaded["encoder.bias"].to(dtype)
+    else:
+        b_enc = torch.zeros(cfg_dict["d_sae"], dtype=dtype, device=device)
+
+    if "b_dec" in state_dict_loaded:
+        b_dec = state_dict_loaded["b_dec"].to(dtype)
+    elif "decoder.bias" in state_dict_loaded:
+        b_dec = state_dict_loaded["decoder.bias"].to(dtype)
+    else:
+        b_dec = torch.zeros(cfg_dict["d_in"], dtype=dtype, device=device)
+
+    state_dict = {"W_enc": W_enc, "b_enc": b_enc, "W_dec": W_dec, "b_dec": b_dec}
+    return cfg_dict, state_dict
+
+
 NAMED_PRETRAINED_SAE_LOADERS: dict[str, PretrainedSaeHuggingfaceLoader] = {
     "sae_lens": sae_lens_huggingface_loader,
     "connor_rob_hook_z": connor_rob_hook_z_huggingface_loader,
@@ -950,6 +1100,7 @@ NAMED_PRETRAINED_SAE_LOADERS: dict[str, PretrainedSaeHuggingfaceLoader] = {
     "llama_scope_r1_distill": llama_scope_r1_distill_sae_huggingface_loader,
     "dictionary_learning_1": dictionary_learning_sae_huggingface_loader_1,
     "deepseek_r1": deepseek_r1_sae_huggingface_loader,
+    "sparsify": sparsify_huggingface_loader,
 }
 
 
@@ -961,4 +1112,5 @@ NAMED_PRETRAINED_SAE_CONFIG_GETTERS: dict[str, PretrainedSaeConfigHuggingfaceLoa
     "llama_scope_r1_distill": get_llama_scope_r1_distill_config_from_hf,
     "dictionary_learning_1": get_dictionary_learning_config_1_from_hf,
     "deepseek_r1": get_deepseek_r1_config_from_hf,
+    "sparsify": get_sparsify_config_from_hf,
 }

sae_lens/pretrained_saes.yaml

@@ -13634,39 +13634,51 @@ gemma-2-2b-res-matryoshka-dc:
   - id: blocks.13.hook_resid_post
     path: standard/blocks.13.hook_resid_post
     l0: 40.0
+    neuronpedia: gemma-2-2b/13-res-matryoshka-dc
   - id: blocks.14.hook_resid_post
     path: standard/blocks.14.hook_resid_post
     l0: 40.0
+    neuronpedia: gemma-2-2b/14-res-matryoshka-dc
   - id: blocks.15.hook_resid_post
     path: standard/blocks.15.hook_resid_post
     l0: 40.0
+    neuronpedia: gemma-2-2b/15-res-matryoshka-dc
   - id: blocks.16.hook_resid_post
     path: standard/blocks.16.hook_resid_post
     l0: 40.0
+    neuronpedia: gemma-2-2b/16-res-matryoshka-dc
   - id: blocks.17.hook_resid_post
     path: standard/blocks.17.hook_resid_post
     l0: 40.0
+    neuronpedia: gemma-2-2b/17-res-matryoshka-dc
   - id: blocks.18.hook_resid_post
     path: standard/blocks.18.hook_resid_post
     l0: 40.0
+    neuronpedia: gemma-2-2b/18-res-matryoshka-dc
   - id: blocks.19.hook_resid_post
     path: standard/blocks.19.hook_resid_post
     l0: 40.0
+    neuronpedia: gemma-2-2b/19-res-matryoshka-dc
   - id: blocks.20.hook_resid_post
     path: standard/blocks.20.hook_resid_post
     l0: 40.0
+    neuronpedia: gemma-2-2b/20-res-matryoshka-dc
   - id: blocks.21.hook_resid_post
     path: standard/blocks.21.hook_resid_post
     l0: 40.0
+    neuronpedia: gemma-2-2b/21-res-matryoshka-dc
   - id: blocks.22.hook_resid_post
     path: standard/blocks.22.hook_resid_post
     l0: 40.0
+    neuronpedia: gemma-2-2b/22-res-matryoshka-dc
   - id: blocks.23.hook_resid_post
     path: standard/blocks.23.hook_resid_post
     l0: 40.0
+    neuronpedia: gemma-2-2b/23-res-matryoshka-dc
   - id: blocks.24.hook_resid_post
     path: standard/blocks.24.hook_resid_post
     l0: 40.0
+    neuronpedia: gemma-2-2b/24-res-matryoshka-dc
 gemma-2-2b-res-snap-matryoshka-dc:
   conversion_func: null
   links:

sae_lens/saes/__init__.py

@@ -1,3 +1,7 @@
+from .batchtopk_sae import (
+    BatchTopKTrainingSAE,
+    BatchTopKTrainingSAEConfig,
+)
 from .gated_sae import (
     GatedSAE,
     GatedSAEConfig,
@@ -45,4 +49,6 @@ __all__ = [
     "TopKSAEConfig",
     "TopKTrainingSAE",
     "TopKTrainingSAEConfig",
+    "BatchTopKTrainingSAE",
+    "BatchTopKTrainingSAEConfig",
 ]

sae_lens/saes/batchtopk_sae.py

@@ -0,0 +1,102 @@
+from dataclasses import dataclass
+from typing import Any, Callable
+
+import torch
+import torch.nn as nn
+from typing_extensions import override
+
+from sae_lens.saes.jumprelu_sae import JumpReLUSAEConfig
+from sae_lens.saes.sae import SAEConfig, TrainStepInput, TrainStepOutput
+from sae_lens.saes.topk_sae import TopKTrainingSAE, TopKTrainingSAEConfig
+
+
+class BatchTopK(nn.Module):
+    """BatchTopK activation function"""
+
+    def __init__(
+        self,
+        k: int,
+    ):
+        super().__init__()
+        self.k = k
+
+    def forward(self, x: torch.Tensor) -> torch.Tensor:
+        acts = x.relu()
+        flat_acts = acts.flatten()
+        acts_topk_flat = torch.topk(flat_acts, self.k * acts.shape[0], dim=-1)
+        return (
+            torch.zeros_like(flat_acts)
+            .scatter(-1, acts_topk_flat.indices, acts_topk_flat.values)
+            .reshape(acts.shape)
+        )
+
+
+@dataclass
+class BatchTopKTrainingSAEConfig(TopKTrainingSAEConfig):
+    """
+    Configuration class for training a BatchTopKTrainingSAE.
+    """
+
+    topk_threshold_lr: float = 0.01
+
+    @override
+    @classmethod
+    def architecture(cls) -> str:
+        return "batchtopk"
+
+    @override
+    def get_inference_config_class(self) -> type[SAEConfig]:
+        return JumpReLUSAEConfig
+
+
+class BatchTopKTrainingSAE(TopKTrainingSAE):
+    """
+    Global Batch TopK Training SAE
+
+    This SAE will maintain the k on average across the batch, rather than enforcing the k per-sample as in standard TopK.
+
+    BatchTopK SAEs are saved as JumpReLU SAEs after training.
+    """
+
+    topk_threshold: torch.Tensor
+    cfg: BatchTopKTrainingSAEConfig  # type: ignore[assignment]
+
+    def __init__(self, cfg: BatchTopKTrainingSAEConfig, use_error_term: bool = False):
+        super().__init__(cfg, use_error_term)
+
+        self.register_buffer(
+            "topk_threshold",
+            # use double precision as otherwise we can run into numerical issues
+            torch.tensor(0.0, dtype=torch.double, device=self.W_dec.device),
+        )
+
+    def get_activation_fn(self) -> Callable[[torch.Tensor], torch.Tensor]:
+        return BatchTopK(self.cfg.k)
+
+    @override
+    def training_forward_pass(self, step_input: TrainStepInput) -> TrainStepOutput:
+        output = super().training_forward_pass(step_input)
+        self.update_topk_threshold(output.feature_acts)
+        output.metrics["topk_threshold"] = self.topk_threshold
+        return output
+
+    @torch.no_grad()
+    def update_topk_threshold(self, acts_topk: torch.Tensor) -> None:
+        positive_mask = acts_topk > 0
+        lr = self.cfg.topk_threshold_lr
+        # autocast can cause numerical issues with the threshold update
+        with torch.autocast(self.topk_threshold.device.type, enabled=False):
+            if positive_mask.any():
+                min_positive = (
+                    acts_topk[positive_mask].min().to(self.topk_threshold.dtype)
+                )
+                self.topk_threshold = (1 - lr) * self.topk_threshold + lr * min_positive
+
+    @override
+    def process_state_dict_for_saving_inference(
+        self, state_dict: dict[str, Any]
+    ) -> None:
+        super().process_state_dict_for_saving_inference(state_dict)
+        # turn the topk threshold into jumprelu threshold
+        topk_threshold = state_dict.pop("topk_threshold").item()
+        state_dict["threshold"] = torch.ones_like(self.b_enc) * topk_threshold

sae_lens/saes/gated_sae.py

@@ -15,7 +15,6 @@ from sae_lens.saes.sae import (
     TrainingSAEConfig,
     TrainStepInput,
 )
-from sae_lens.util import filter_valid_dataclass_fields
 
 
 @dataclass
@@ -100,16 +99,10 @@ class GatedSAE(SAE[GatedSAEConfig]):
         self.W_enc.data = self.W_enc.data * W_dec_norms.T
 
         # Gated-specific parameters need special handling
-        self.r_mag.data = self.r_mag.data * W_dec_norms.squeeze()
+        # r_mag doesn't need scaling since W_enc scaling is sufficient for magnitude path
         self.b_gate.data = self.b_gate.data * W_dec_norms.squeeze()
         self.b_mag.data = self.b_mag.data * W_dec_norms.squeeze()
 
-    @torch.no_grad()
-    def initialize_decoder_norm_constant_norm(self, norm: float = 0.1):
-        """Initialize decoder with constant norm."""
-        self.W_dec.data /= torch.norm(self.W_dec.data, dim=1, keepdim=True)
-        self.W_dec.data *= norm
-
 
 @dataclass
 class GatedTrainingSAEConfig(TrainingSAEConfig):
@@ -133,7 +126,7 @@ class GatedTrainingSAE(TrainingSAE[GatedTrainingSAEConfig]):
       - initialize_weights: sets up gating parameters (as in GatedSAE) plus optional training-specific init.
       - encode: calls encode_with_hidden_pre (standard training approach).
       - decode: linear transformation + hooking, same as GatedSAE or StandardTrainingSAE.
-      - encode_with_hidden_pre: gating logic + optional noise injection for training.
+      - encode_with_hidden_pre: gating logic.
       - calculate_aux_loss: includes an auxiliary reconstruction path and gating-based sparsity penalty.
       - training_forward_pass: calls encode_with_hidden_pre, decode, and sums up MSE + gating losses.
     """
@@ -158,7 +151,6 @@ class GatedTrainingSAE(TrainingSAE[GatedTrainingSAEConfig]):
     ) -> tuple[Float[torch.Tensor, "... d_sae"], Float[torch.Tensor, "... d_sae"]]:
         """
         Gated forward pass with pre-activation (for training).
-        We also inject noise if self.training is True.
         """
         sae_in = self.process_sae_in(x)
 
@@ -219,12 +211,6 @@ class GatedTrainingSAE(TrainingSAE[GatedTrainingSAEConfig]):
             "weights/b_mag": b_mag_dist,
         }
 
-    @torch.no_grad()
-    def initialize_decoder_norm_constant_norm(self, norm: float = 0.1):
-        """Initialize decoder with constant norm"""
-        self.W_dec.data /= torch.norm(self.W_dec.data, dim=1, keepdim=True)
-        self.W_dec.data *= norm
-
     def get_coefficients(self) -> dict[str, float | TrainCoefficientConfig]:
         return {
             "l1": TrainCoefficientConfig(
@@ -233,10 +219,17 @@ class GatedTrainingSAE(TrainingSAE[GatedTrainingSAEConfig]):
             ),
         }
 
-    def to_inference_config_dict(self) -> dict[str, Any]:
-        return filter_valid_dataclass_fields(
-            self.cfg.to_dict(), GatedSAEConfig, ["architecture"]
-        )
+    @torch.no_grad()
+    def fold_W_dec_norm(self):
+        """Override to handle gated-specific parameters."""
+        W_dec_norms = self.W_dec.norm(dim=-1).unsqueeze(1)
+        self.W_dec.data = self.W_dec.data / W_dec_norms
+        self.W_enc.data = self.W_enc.data * W_dec_norms.T
+
+        # Gated-specific parameters need special handling
+        # r_mag doesn't need scaling since W_enc scaling is sufficient for magnitude path
+        self.b_gate.data = self.b_gate.data * W_dec_norms.squeeze()
+        self.b_mag.data = self.b_mag.data * W_dec_norms.squeeze()
 
 
 def _init_weights_gated(

sae_lens/saes/jumprelu_sae.py

@@ -14,9 +14,7 @@ from sae_lens.saes.sae import (
     TrainingSAE,
     TrainingSAEConfig,
     TrainStepInput,
-    TrainStepOutput,
 )
-from sae_lens.util import filter_valid_dataclass_fields
 
 
 def rectangle(x: torch.Tensor) -> torch.Tensor:
@@ -208,12 +206,11 @@ class JumpReLUTrainingSAE(TrainingSAE[JumpReLUTrainingSAEConfig]):
 
     Similar to the inference-only JumpReLUSAE, but with:
       - A learnable log-threshold parameter (instead of a raw threshold).
-      - Forward passes that add noise during training, if configured.
       - A specialized auxiliary loss term for sparsity (L0 or similar).
 
     Methods of interest include:
     - initialize_weights: sets up W_enc, b_enc, W_dec, b_dec, and log_threshold.
-    - encode_with_hidden_pre_jumprelu: runs a forward pass for training, optionally adding noise.
+    - encode_with_hidden_pre_jumprelu: runs a forward pass for training.
     - training_forward_pass: calculates MSE and auxiliary losses, returning a TrainStepOutput.
     """
 
@@ -300,34 +297,6 @@ class JumpReLUTrainingSAE(TrainingSAE[JumpReLUTrainingSAEConfig]):
         # Fix: Use squeeze() instead of squeeze(-1) to match old behavior
         self.log_threshold.data = torch.log(current_thresh * W_dec_norms.squeeze())
 
-    def _create_train_step_output(
-        self,
-        sae_in: torch.Tensor,
-        sae_out: torch.Tensor,
-        feature_acts: torch.Tensor,
-        hidden_pre: torch.Tensor,
-        loss: torch.Tensor,
-        losses: dict[str, torch.Tensor],
-    ) -> TrainStepOutput:
-        """
-        Helper to produce a TrainStepOutput from the trainer.
-        The old code expects a method named _create_train_step_output().
-        """
-        return TrainStepOutput(
-            sae_in=sae_in,
-            sae_out=sae_out,
-            feature_acts=feature_acts,
-            hidden_pre=hidden_pre,
-            loss=loss,
-            losses=losses,
-        )
-
-    @torch.no_grad()
-    def initialize_decoder_norm_constant_norm(self, norm: float = 0.1):
-        """Initialize decoder with constant norm"""
-        self.W_dec.data /= torch.norm(self.W_dec.data, dim=1, keepdim=True)
-        self.W_dec.data *= norm
-
     def process_state_dict_for_saving(self, state_dict: dict[str, Any]) -> None:
         """Convert log_threshold to threshold for saving"""
         if "log_threshold" in state_dict:
@@ -341,8 +310,3 @@ class JumpReLUTrainingSAE(TrainingSAE[JumpReLUTrainingSAEConfig]):
             threshold = state_dict["threshold"]
             del state_dict["threshold"]
             state_dict["log_threshold"] = torch.log(threshold).detach().contiguous()
-
-    def to_inference_config_dict(self) -> dict[str, Any]:
-        return filter_valid_dataclass_fields(
-            self.cfg.to_dict(), JumpReLUSAEConfig, ["architecture"]
-        )

sae_lens/saes/sae.py

@@ -27,7 +27,7 @@ from torch import nn
 from transformer_lens.hook_points import HookedRootModule, HookPoint
 from typing_extensions import deprecated, overload, override
 
-from sae_lens import __version__, logger
+from sae_lens import __version__
 from sae_lens.constants import (
     DTYPE_MAP,
     SAE_CFG_FILENAME,
@@ -207,6 +207,8 @@ class TrainStepOutput:
     hidden_pre: torch.Tensor
     loss: torch.Tensor  # we need to call backwards on this
     losses: dict[str, torch.Tensor]
+    # any extra metrics to log can be added here
+    metrics: dict[str, torch.Tensor | float | int] = field(default_factory=dict)
 
 
 @dataclass
@@ -528,28 +530,6 @@ class SAE(HookedRootModule, Generic[T_SAE_CONFIG], ABC):
 
         return model_weights_path, cfg_path
 
-    ## Initialization Methods
-    @torch.no_grad()
-    def initialize_b_dec_with_precalculated(self, origin: torch.Tensor):
-        out = torch.tensor(origin, dtype=self.dtype, device=self.device)
-        self.b_dec.data = out
-
-    @torch.no_grad()
-    def initialize_b_dec_with_mean(self, all_activations: torch.Tensor):
-        previous_b_dec = self.b_dec.clone().cpu()
-        out = all_activations.mean(dim=0)
-
-        previous_distances = torch.norm(all_activations - previous_b_dec, dim=-1)
-        distances = torch.norm(all_activations - out, dim=-1)
-
-        logger.info("Reinitializing b_dec with mean of activations")
-        logger.debug(
-            f"Previous distances: {previous_distances.median(0).values.mean().item()}"
-        )
-        logger.debug(f"New distances: {distances.median(0).values.mean().item()}")
-
-        self.b_dec.data = out.to(self.dtype).to(self.device)
-
     # Class methods for loading models
     @classmethod
     @deprecated("Use load_from_disk instead")
@@ -732,6 +712,64 @@ class SAE(HookedRootModule, Generic[T_SAE_CONFIG], ABC):
     ) -> type[SAEConfig]:
         return SAEConfig
 
+    ### Methods to support deprecated usage of SAE.from_pretrained() ###
+
+    def __getitem__(self, index: int) -> Any:
+        """
+        Support indexing for backward compatibility with tuple unpacking.
+        DEPRECATED: SAE.from_pretrained() no longer returns a tuple.
+        Use SAE.from_pretrained_with_cfg_and_sparsity() instead.
+        """
+        warnings.warn(
+            "Indexing SAE objects is deprecated. SAE.from_pretrained() now returns "
+            "only the SAE object. Use SAE.from_pretrained_with_cfg_and_sparsity() "
+            "to get the config dict and sparsity as well.",
+            DeprecationWarning,
+            stacklevel=2,
+        )
+
+        if index == 0:
+            return self
+        if index == 1:
+            return self.cfg.to_dict()
+        if index == 2:
+            return None
+        raise IndexError(f"SAE tuple index {index} out of range")
+
+    def __iter__(self):
+        """
+        Support unpacking for backward compatibility with tuple unpacking.
+        DEPRECATED: SAE.from_pretrained() no longer returns a tuple.
+        Use SAE.from_pretrained_with_cfg_and_sparsity() instead.
+        """
+        warnings.warn(
+            "Unpacking SAE objects is deprecated. SAE.from_pretrained() now returns "
+            "only the SAE object. Use SAE.from_pretrained_with_cfg_and_sparsity() "
+            "to get the config dict and sparsity as well.",
+            DeprecationWarning,
+            stacklevel=2,
+        )
+
+        yield self
+        yield self.cfg.to_dict()
+        yield None
+
+    def __len__(self) -> int:
+        """
+        Support len() for backward compatibility with tuple unpacking.
+        DEPRECATED: SAE.from_pretrained() no longer returns a tuple.
+        Use SAE.from_pretrained_with_cfg_and_sparsity() instead.
+        """
+        warnings.warn(
+            "Getting length of SAE objects is deprecated. SAE.from_pretrained() now returns "
+            "only the SAE object. Use SAE.from_pretrained_with_cfg_and_sparsity() "
+            "to get the config dict and sparsity as well.",
+            DeprecationWarning,
+            stacklevel=2,
+        )
+
+        return 3
+
 
 @dataclass(kw_only=True)
 class TrainingSAEConfig(SAEConfig, ABC):
@@ -789,20 +827,26 @@ class TrainingSAEConfig(SAEConfig, ABC):
             "architecture": self.architecture(),
         }
 
+    def get_inference_config_class(self) -> type[SAEConfig]:
+        """
+        Get the architecture for inference.
+        """
+        return get_sae_class(self.architecture())[1]
+
     # this needs to exist so we can initialize the parent sae cfg without the training specific
     # parameters. Maybe there's a cleaner way to do this
-    def get_base_sae_cfg_dict(self) -> dict[str, Any]:
+    def get_inference_sae_cfg_dict(self) -> dict[str, Any]:
         """
         Creates a dictionary containing attributes corresponding to the fields
         defined in the base SAEConfig class.
         """
-        base_sae_cfg_class = get_sae_class(self.architecture())[1]
+        base_sae_cfg_class = self.get_inference_config_class()
         base_config_field_names = {f.name for f in fields(base_sae_cfg_class)}
         result_dict = {
             field_name: getattr(self, field_name)
             for field_name in base_config_field_names
         }
-        result_dict["architecture"] = self.architecture()
+        result_dict["architecture"] = base_sae_cfg_class.architecture()
         result_dict["metadata"] = self.metadata.to_dict()
         return result_dict
 
@@ -930,18 +974,13 @@ class TrainingSAE(SAE[T_TRAINING_SAE_CONFIG], ABC):
         save_file(state_dict, model_weights_path)
 
         # Save the config
-        config = self.to_inference_config_dict()
+        config = self.cfg.get_inference_sae_cfg_dict()
         cfg_path = path / SAE_CFG_FILENAME
         with open(cfg_path, "w") as f:
             json.dump(config, f)
 
         return model_weights_path, cfg_path
 
-    @abstractmethod
-    def to_inference_config_dict(self) -> dict[str, Any]:
-        """Convert the config into an inference SAE config dict."""
-        ...
-
     def process_state_dict_for_saving_inference(
         self, state_dict: dict[str, Any]
     ) -> None:
@@ -951,23 +990,6 @@ class TrainingSAE(SAE[T_TRAINING_SAE_CONFIG], ABC):
         """
         return self.process_state_dict_for_saving(state_dict)
 
-    @torch.no_grad()
-    def remove_gradient_parallel_to_decoder_directions(self) -> None:
-        """Remove gradient components parallel to decoder directions."""
-        # Implement the original logic since this may not be in the base class
-        assert self.W_dec.grad is not None
-
-        parallel_component = einops.einsum(
-            self.W_dec.grad,
-            self.W_dec.data,
-            "d_sae d_in, d_sae d_in -> d_sae",
-        )
-        self.W_dec.grad -= einops.einsum(
-            parallel_component,
-            self.W_dec.data,
-            "d_sae, d_sae d_in -> d_sae d_in",
-        )
-
     @torch.no_grad()
     def log_histograms(self) -> dict[str, NDArray[Any]]:
         """Log histograms of the weights and biases."""

sae_lens/saes/standard_sae.py

@@ -1,5 +1,4 @@
 from dataclasses import dataclass
-from typing import Any
 
 import numpy as np
 import torch
@@ -16,7 +15,6 @@ from sae_lens.saes.sae import (
     TrainingSAEConfig,
     TrainStepInput,
 )
-from sae_lens.util import filter_valid_dataclass_fields
 
 
 @dataclass
@@ -61,7 +59,6 @@ class StandardSAE(SAE[StandardSAEConfig]):
     ) -> Float[torch.Tensor, "... d_sae"]:
         """
         Encode the input tensor into the feature space.
-        For inference, no noise is added.
         """
         # Preprocess the SAE input (casting type, applying hooks, normalization)
         sae_in = self.process_sae_in(x)
@@ -110,7 +107,7 @@ class StandardTrainingSAE(TrainingSAE[StandardTrainingSAEConfig]):
       - initialize_weights: basic weight initialization for encoder/decoder.
       - encode: inference encoding (invokes encode_with_hidden_pre).
       - decode: a simple linear decoder.
-      - encode_with_hidden_pre: computes pre-activations, adds noise when training, and then activates.
+      - encode_with_hidden_pre: computes activations and pre-activations.
       - calculate_aux_loss: computes a sparsity penalty based on the (optionally scaled) p-norm of feature activations.
     """
 
@@ -164,11 +161,6 @@ class StandardTrainingSAE(TrainingSAE[StandardTrainingSAEConfig]):
             "weights/b_e": b_e_dist,
         }
 
-    def to_inference_config_dict(self) -> dict[str, Any]:
-        return filter_valid_dataclass_fields(
-            self.cfg.to_dict(), StandardSAEConfig, ["architecture"]
-        )
-
 
 def _init_weights_standard(
     sae: SAE[StandardSAEConfig] | TrainingSAE[StandardTrainingSAEConfig],

sae_lens/saes/topk_sae.py

@@ -1,7 +1,7 @@
 """Inference-only TopKSAE variant, similar in spirit to StandardSAE but using a TopK-based activation."""
 
 from dataclasses import dataclass
-from typing import Any, Callable
+from typing import Callable
 
 import torch
 from jaxtyping import Float
@@ -16,13 +16,12 @@ from sae_lens.saes.sae import (
     TrainingSAEConfig,
     TrainStepInput,
 )
-from sae_lens.util import filter_valid_dataclass_fields
 
 
 class TopK(nn.Module):
     """
     A simple TopK activation that zeroes out all but the top K elements along the last dimension,
-    then optionally applies a post-activation function (e.g., ReLU).
+    and applies ReLU to the top K elements.
     """
 
     b_enc: nn.Parameter
@@ -30,20 +29,18 @@ class TopK(nn.Module):
     def __init__(
         self,
         k: int,
-        postact_fn: Callable[[torch.Tensor], torch.Tensor] = nn.ReLU(),
     ):
         super().__init__()
         self.k = k
-        self.postact_fn = postact_fn
 
     def forward(self, x: torch.Tensor) -> torch.Tensor:
         """
         1) Select top K elements along the last dimension.
-        2) Apply post-activation (often ReLU).
+        2) Apply ReLU.
         3) Zero out all other entries.
         """
         topk = torch.topk(x, k=self.k, dim=-1)
-        values = self.postact_fn(topk.values)
+        values = topk.values.relu()
         result = torch.zeros_like(x)
         result.scatter_(-1, topk.indices, values)
         return result
@@ -139,8 +136,7 @@ class TopKTrainingSAEConfig(TrainingSAEConfig):
 
 class TopKTrainingSAE(TrainingSAE[TopKTrainingSAEConfig]):
     """
-    TopK variant with training functionality. Injects noise during training, optionally
-    calculates a topk-related auxiliary loss, etc.
+    TopK variant with training functionality. Calculates a topk-related auxiliary loss, etc.
     """
 
     b_enc: nn.Parameter
@@ -157,7 +153,7 @@ class TopKTrainingSAE(TrainingSAE[TopKTrainingSAEConfig]):
         self, x: Float[torch.Tensor, "... d_in"]
     ) -> tuple[Float[torch.Tensor, "... d_sae"], Float[torch.Tensor, "... d_sae"]]:
         """
-        Similar to the base training method: cast input, optionally add noise, then apply TopK.
+        Similar to the base training method: calculate pre-activations, then apply TopK.
         """
         sae_in = self.process_sae_in(x)
         hidden_pre = self.hook_sae_acts_pre(sae_in @ self.W_enc + self.b_enc)
@@ -237,50 +233,24 @@ class TopKTrainingSAE(TrainingSAE[TopKTrainingSAEConfig]):
         auxk_loss = (recons - residual).pow(2).sum(dim=-1).mean()
         return scale * auxk_loss
 
-    def _calculate_topk_aux_acts(
-        self,
-        k_aux: int,
-        hidden_pre: torch.Tensor,
-        dead_neuron_mask: torch.Tensor,
-    ) -> torch.Tensor:
-        """
-        Helper method to calculate activations for the auxiliary loss.
-
-        Args:
-            k_aux: Number of top dead neurons to select
-            hidden_pre: Pre-activation values from encoder
-            dead_neuron_mask: Boolean mask indicating which neurons are dead
-
-        Returns:
-            Tensor with activations for only the top-k dead neurons, zeros elsewhere
-        """
-        # Don't include living latents in this loss (set them to -inf so they won't be selected)
-        auxk_latents = torch.where(
-            dead_neuron_mask[None],
-            hidden_pre,
-            torch.tensor(-float("inf"), device=hidden_pre.device),
-        )
-
-        # Find topk values among dead neurons
-        auxk_topk = auxk_latents.topk(k_aux, dim=-1, sorted=False)
-
-        # Create a tensor of zeros, then place the topk values at their proper indices
-        auxk_acts = torch.zeros_like(hidden_pre)
-        auxk_acts.scatter_(-1, auxk_topk.indices, auxk_topk.values)
-
-        return auxk_acts
-
-    def to_inference_config_dict(self) -> dict[str, Any]:
-        return filter_valid_dataclass_fields(
-            self.cfg.to_dict(), TopKSAEConfig, ["architecture"]
-        )
-
 
 def _calculate_topk_aux_acts(
     k_aux: int,
     hidden_pre: torch.Tensor,
     dead_neuron_mask: torch.Tensor,
 ) -> torch.Tensor:
+    """
+    Helper method to calculate activations for the auxiliary loss.
+
+    Args:
+        k_aux: Number of top dead neurons to select
+        hidden_pre: Pre-activation values from encoder
+        dead_neuron_mask: Boolean mask indicating which neurons are dead
+
+    Returns:
+        Tensor with activations for only the top-k dead neurons, zeros elsewhere
+    """
+
     # Don't include living latents in this loss
     auxk_latents = torch.where(dead_neuron_mask[None], hidden_pre, -torch.inf)
     # Top-k dead latents

sae_lens/training/activations_store.py

@@ -7,7 +7,6 @@ from collections.abc import Generator, Iterator, Sequence
 from typing import Any, Literal, cast
 
 import datasets
-import numpy as np
 import torch
 from datasets import Dataset, DatasetDict, IterableDataset, load_dataset
 from huggingface_hub import hf_hub_download
@@ -420,20 +419,6 @@ class ActivationsStore:
 
         return activations_dataset
 
-    @torch.no_grad()
-    def estimate_norm_scaling_factor(self, n_batches_for_norm_estimate: int = int(1e3)):
-        norms_per_batch = []
-        for _ in tqdm(
-            range(n_batches_for_norm_estimate), desc="Estimating norm scaling factor"
-        ):
-            # temporalily set estimated_norm_scaling_factor to 1.0 so the dataloader works
-            self.estimated_norm_scaling_factor = 1.0
-            acts = self.next_batch()[0]
-            self.estimated_norm_scaling_factor = None
-            norms_per_batch.append(acts.norm(dim=-1).mean().item())
-        mean_norm = np.mean(norms_per_batch)
-        return np.sqrt(self.d_in) / mean_norm
-
     def shuffle_input_dataset(self, seed: int, buffer_size: int = 1):
         """
         This applies a shuffle to the huggingface dataset that is the input to the activations store. This

sae_lens/training/optim.py

@@ -2,8 +2,6 @@
 Took the LR scheduler from my previous work: https://github.com/jbloomAus/DecisionTransformerInterpretability/blob/ee55df35cdb92e81d689c72fb9dd5a7252893363/src/decision_transformer/utils.py#L425
 """
 
-from typing import Any
-
 import torch.optim as optim
 import torch.optim.lr_scheduler as lr_scheduler
 
@@ -152,34 +150,3 @@ class CoefficientScheduler:
     def value(self) -> float:
         """Returns the current scalar value."""
         return self.current_value
-
-    def state_dict(self) -> dict[str, Any]:
-        """State dict for serialization."""
-        return {
-            "warm_up_steps": self.warm_up_steps,
-            "final_value": self.final_value,
-            "current_step": self.current_step,
-            "current_value": self.current_value,
-        }
-
-    def load_state_dict(self, state_dict: dict[str, Any]):
-        """Loads the scheduler state."""
-        self.warm_up_steps = state_dict["warm_up_steps"]
-        self.final_value = state_dict["final_value"]
-        self.current_step = state_dict["current_step"]
-        # Maintain consistency: re-calculate current_value based on loaded step
-        # This handles resuming correctly if stopped mid-warmup.
-        if self.current_step <= self.warm_up_steps and self.warm_up_steps > 0:
-            # Use max(0, ...) to handle case where current_step might be loaded as -1 or similar before first step
-            step_for_calc = max(0, self.current_step)
-            # Recalculate based on the step *before* the one about to be taken
-            # Or simply use the saved current_value if available and consistent
-            if "current_value" in state_dict:
-                self.current_value = state_dict["current_value"]
-            else:  # Legacy state dicts might not have current_value
-                self.current_value = self.final_value * (
-                    step_for_calc / self.warm_up_steps
-                )
-
-        else:
-            self.current_value = self.final_value

sae_lens/training/sae_trainer.py

@@ -349,8 +349,10 @@ class SAETrainer(Generic[T_TRAINING_SAE, T_TRAINING_SAE_CONFIG]):
             },
         }
         for loss_name, loss_value in output.losses.items():
-            loss_item = _unwrap_item(loss_value)
-            log_dict[f"losses/{loss_name}"] = loss_item
+            log_dict[f"losses/{loss_name}"] = _unwrap_item(loss_value)
+
+        for metric_name, metric_value in output.metrics.items():
+            log_dict[f"metrics/{metric_name}"] = _unwrap_item(metric_value)
 
         return log_dict
 

{sae_lens-6.0.0rc4.dist-info → sae_lens-6.1.0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.3
 Name: sae-lens
-Version: 6.0.0rc4
+Version: 6.1.0
 Summary: Training and Analyzing Sparse Autoencoders (SAEs)
 License: MIT
 Keywords: deep-learning,sparse-autoencoders,mechanistic-interpretability,PyTorch
@@ -80,7 +80,7 @@ Pre-trained SAEs for various models can be imported via SAE Lens. See this [page
 
 ## Join the Slack!
 
-Feel free to join the [Open Source Mechanistic Interpretability Slack](https://join.slack.com/t/opensourcemechanistic/shared_invite/zt-2o756ku1c-_yKBeUQMVfS_p_qcK6QLeA) for support!
+Feel free to join the [Open Source Mechanistic Interpretability Slack](https://join.slack.com/t/opensourcemechanistic/shared_invite/zt-375zalm04-GFd5tdBU1yLKlu_T_JSqZQ) for support!
 
 ## Citation
 

sae_lens-6.1.0.dist-info/RECORD

@@ -0,0 +1,38 @@
+sae_lens/__init__.py,sha256=vM8ncfMn8YHyl1CHj48L2pG6FWJ54--3blxrY3WtJww,3073
+sae_lens/analysis/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
+sae_lens/analysis/hooked_sae_transformer.py,sha256=Eyg1Y2hVIHNuiiLOCTgzstOuW6iA-7hPHqaGR8y_vMs,13809
+sae_lens/analysis/neuronpedia_integration.py,sha256=MrENqc81Mc2SMbxGjbwHzpkGUCAFKSf0i4EdaUF2Oj4,18707
+sae_lens/cache_activations_runner.py,sha256=L5hhuU2-zPQr2S3L64GMKKLeMQfqXxwDl8NbuOtrybI,12567
+sae_lens/config.py,sha256=qMMx9KuiXTD5lG3g0VzaekWOnvdAzGFSq8j1n-GObEQ,26467
+sae_lens/constants.py,sha256=CSjmiZ-bhjQeVLyRvWxAjBokCgkfM8mnvd7-vxLIWTY,639
+sae_lens/evals.py,sha256=kQyrzczKaVD9rHwfFa_DxL_gMXDxsoIVHmsFIPIU2bY,38696
+sae_lens/llm_sae_training_runner.py,sha256=58XbDylw2fPOD7C-ZfSAjeNqJLXB05uHGTuiYVVbXXY,13354
+sae_lens/load_model.py,sha256=dBB_9gO6kWyQ4sXHq7qB8T3YUlXm3PGwYcpR4UVW4QY,8633
+sae_lens/loading/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
+sae_lens/loading/pretrained_sae_loaders.py,sha256=5XEU4uFFeGCePwqDwhlE7CrFGRSI0U9Cu-UQVa33Y1E,36432
+sae_lens/loading/pretrained_saes_directory.py,sha256=4Vn-Jex6SveD7EbxcSOBv8cx1gkPfUMLU1QOP-ww1ZE,3752
+sae_lens/pretokenize_runner.py,sha256=0nHQq3s_d80VS8iVK4-e6y_orAYVO8c4RrLGtIDfK_E,6885
+sae_lens/pretrained_saes.yaml,sha256=nhHW1auhyi4GHYrjUnHQqbNVhI5cMJv-HThzbzU1xG0,574145
+sae_lens/registry.py,sha256=nhy7BPSudSATqW4lo9H_k3Na7sfGHmAf9v-3wpnLL_o,1490
+sae_lens/saes/__init__.py,sha256=RYqE1qkMws-kwQLmBZFhA_VCa69zVtBjGPIy_UAk2pw,1159
+sae_lens/saes/batchtopk_sae.py,sha256=CyaFG2hMyyDaEaXXrAMJC8wQDW1JoddTKF5mvxxBQKY,3395
+sae_lens/saes/gated_sae.py,sha256=qcmM9JwBA8aZR8z_IRHV1_gQX-q_63tKewWXRnhdXuo,8986
+sae_lens/saes/jumprelu_sae.py,sha256=3xkhBcCol2mEpIBLceymCpudocm2ypOjTeTXbpiXoA4,10794
+sae_lens/saes/sae.py,sha256=McpF4pTh70r6SQUbHFm0YQ9X2c2qPULBUSd_YmnEk4Y,38284
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