Datasets:
Add: GPU MaxSim retrievers and ground-truth pipeline
Browse files- retrievers.py with shared CuPy kernels (segment_max + segment_sum
RawKernels) and DenseRetriever / MaxSimRetriever classes; same kernels
drive ground_truth.py via gt_stripe_{dense,maxsim} per-GPU workers.
- ground_truth.py gains --mode {dense,maxsim}; both modes write per-shard
.body.ground_truth.{ibin,fbin} files with global row IDs (article IDs
for dense, section IDs for maxsim).
- build_index.py absorbs sweep_matryoshka.py via --no-save +
--ef-search-sweep flags; default behavior unchanged.
- embed_sections.py is now the unified pool scheduler (the per-wiki
variant is gone).
- wikiverse.py renamed to usearchwiki.py.
Validated end-to-end against NumPy on non-degenerate synthetic data
(top-10 sets match exactly, max score diff 2e-4) and cross-checked
against NumKong CPU MaxSim (rankings agree exactly; scores differ only
because NumKong returns angular distance while the GPU returns cosine).
- README.md +2 -2
- build_index.py +242 -51
- embed_articles.py +1 -1
- embed_sections.py +169 -103
- eval_recall.py +111 -23
- ground_truth.py +234 -309
- retrievers.py +845 -0
- tests/test_ground_truth.py +1 -1
- wikiverse.py → usearchwiki.py +0 -0
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@@ -149,7 +149,7 @@ unum-cloud/USearchWiki/
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├── README.md
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├── LICENSE
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├── .gitattributes
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-
├──
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├── embed_articles.py # one dense vector per article, via TEI
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├── embed_sections.py # late-chunking ColBERT: one vector per section
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├── late_chunking.py # section-aware windowing primitives
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@@ -233,7 +233,7 @@ git lfs checkout
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### Loading embeddings in Python
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```python
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from
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matrix = read_bin("qwen3-embedding-0.6b/enwiki/000_00000.body.f16bin", dtype="f16")
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# matrix.shape == (rows_in_shard, 1024)
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```
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├── README.md
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├── LICENSE
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├── .gitattributes
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+
├── usearchwiki.py # consumer module: load_lang, read_bin, discover_collection, ...
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├── embed_articles.py # one dense vector per article, via TEI
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├── embed_sections.py # late-chunking ColBERT: one vector per section
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├── late_chunking.py # section-aware windowing primitives
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### Loading embeddings in Python
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```python
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+
from usearchwiki import read_bin
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matrix = read_bin("qwen3-embedding-0.6b/enwiki/000_00000.body.f16bin", dtype="f16")
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# matrix.shape == (rows_in_shard, 1024)
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```
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"""Build a USearch index from per-shard `.f16bin` files in canonical order.
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Memory-maps the LFS-resolved `.f16bin` blobs so the OS pages vectors in
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lazily — keeps RSS bounded when running multiple builds in parallel.
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-
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Inspired by ashvardanian/RetriEval's USearch wrapper:
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- reserve capacity up front
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- parallel `add()` with a fixed thread count
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- cosine metric, f16 quantization (matching storage dtype)
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- HNSW hyperparameters connectivity / expansion_add
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- ef_search is a *query-time* knob, not set here
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"""
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from __future__ import annotations
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import argparse
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import os
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import struct
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import sys
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@@ -29,45 +27,59 @@ import numpy as np
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REPO_ROOT = Path(__file__).resolve().parent
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sys.path.insert(0, str(REPO_ROOT))
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from
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CollectionShard,
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discover_collection,
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resolve_lfs_pointer,
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)
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-
def memmap_shard(
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"""Memory-map a `.f16bin` shard skipping its 8-byte header.
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-
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-
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"""
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blob = resolve_lfs_pointer(shard.path)
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-
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blob,
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dtype=np.float16,
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mode="r",
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offset=8,
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-
shape=(shard.row_count,
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)
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def add_shards(
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index,
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shards: list[CollectionShard],
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-
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threads: int,
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log_every: int,
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) -> int:
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"""Stream every shard's vectors into the index. Keys are sequential
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-
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"""
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cumulative_rows = 0
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started = time.monotonic()
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bytes_added_since_log = 0
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last_log_at = started
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for shard_index, shard in enumerate(shards):
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vectors = memmap_shard(shard,
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keys = np.arange(
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shard.row_offset, shard.row_offset + shard.row_count, dtype=np.uint64
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)
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@@ -92,13 +104,141 @@ def add_shards(
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return cumulative_rows
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def main() -> None:
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parser = argparse.ArgumentParser()
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parser.add_argument(
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"--output",
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default="/home/ubuntu/WikiVerse",
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help="root directory holding {model-subdir}/{wiki}/*.f16bin",
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-
)
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parser.add_argument(
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"--model-subdir",
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required=True,
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@@ -126,13 +266,13 @@ def main() -> None:
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"--connectivity",
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type=int,
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default=16,
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-
help="HNSW M, neighbors per node
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)
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parser.add_argument(
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"--expansion-add",
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type=int,
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default=256,
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-
help="HNSW efConstruction; bumped from
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)
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parser.add_argument(
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"--metric",
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@@ -151,6 +291,35 @@ def main() -> None:
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default=10,
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help="print a progress line every N shards",
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)
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args = parser.parse_args()
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from usearch.index import Index # local import: heavy dependency
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@@ -161,9 +330,6 @@ def main() -> None:
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shards = discover_collection(model_root, args.output_suffix)
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if not shards:
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raise SystemExit(f"no .{args.output_suffix}.f16bin shards under {model_root}")
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-
# Read dimensions from the first shard's header. (Within a model the
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-
# collection is consistent by construction; if it weren't, `index.add`
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-
# would raise on the first mismatched shard anyway.)
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first_blob = resolve_lfs_pointer(shards[0].path)
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with open(first_blob, "rb") as file:
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_, dimensions = struct.unpack("<II", file.read(8))
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@@ -176,21 +342,25 @@ def main() -> None:
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flush=True,
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)
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-
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-
args.
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-
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-
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-
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print(
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f"opening USearch index "
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-
f"(dim={
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f"M={args.connectivity}, ef_add={args.expansion_add}, "
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-
f"multi=False, threads={args.threads}
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flush=True,
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)
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index = Index(
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-
ndim=
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metric=args.metric,
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dtype=args.dtype,
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connectivity=args.connectivity,
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@@ -203,27 +373,48 @@ def main() -> None:
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added = add_shards(
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index=index,
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shards=shards,
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-
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threads=args.threads,
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log_every=args.log_every,
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)
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-
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-
rate = added / max(
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print(
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-
f"added {added:,} vectors in {
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f"({rate:,.0f} vec/s), index size now {len(index):,}",
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flush=True,
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)
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-
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-
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-
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-
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-
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-
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-
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-
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-
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if __name__ == "__main__":
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"""Build a USearch index from per-shard `.f16bin` files in canonical order.
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+
Two modes:
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+
- default: build the index, save to disk as `{suffix}.usearch`.
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+
- `--no-save --ef-search-sweep ef1,ef2,...`: build the index in memory,
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+
evaluate Recall@k_recall and NDCG@k_ndcg across the ef sweep, append a
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+
row per ef to `--stats-jsonl`, then drop the index without saving. This
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+
is the Matryoshka-style quality-vs-width sweep — useful when you want
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+
the *numbers* but not the artefacts.
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Memory-maps the LFS-resolved `.f16bin` blobs so the OS pages vectors in
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lazily — keeps RSS bounded when running multiple builds in parallel.
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"""
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from __future__ import annotations
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import argparse
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+
import json
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import os
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import struct
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import sys
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| 27 |
REPO_ROOT = Path(__file__).resolve().parent
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| 28 |
sys.path.insert(0, str(REPO_ROOT))
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| 30 |
+
from usearchwiki import ( # noqa: E402
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CollectionShard,
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discover_collection,
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resolve_lfs_pointer,
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)
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+
def memmap_shard(
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| 38 |
+
shard: CollectionShard,
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| 39 |
+
dimensions_full: int,
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+
dimensions_target: int | None = None,
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+
) -> np.ndarray:
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| 42 |
"""Memory-map a `.f16bin` shard skipping its 8-byte header.
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| 43 |
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| 44 |
+
When `dimensions_target == dimensions_full` the result is a read-only
|
| 45 |
+
memmap'd view (zero-copy). When `dimensions_target < dimensions_full`
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| 46 |
+
the leading `dimensions_target` columns are sliced and L2-renormalized
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| 47 |
+
in FP32 before being cast back to FP16 — the standard Matryoshka
|
| 48 |
+
truncation recipe.
|
| 49 |
"""
|
| 50 |
blob = resolve_lfs_pointer(shard.path)
|
| 51 |
+
full = np.memmap(
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| 52 |
blob,
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dtype=np.float16,
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| 54 |
mode="r",
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| 55 |
offset=8,
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| 56 |
+
shape=(shard.row_count, dimensions_full),
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| 57 |
)
|
| 58 |
+
if dimensions_target is None or dimensions_target == dimensions_full:
|
| 59 |
+
return full
|
| 60 |
+
sliced = np.asarray(full[:, :dimensions_target], dtype=np.float32)
|
| 61 |
+
norms = np.linalg.norm(sliced, axis=1, keepdims=True)
|
| 62 |
+
norms[norms == 0] = 1.0
|
| 63 |
+
return (sliced / norms).astype(np.float16)
|
| 64 |
|
| 65 |
|
| 66 |
def add_shards(
|
| 67 |
index,
|
| 68 |
shards: list[CollectionShard],
|
| 69 |
+
dimensions_full: int,
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| 70 |
+
dimensions_target: int,
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| 71 |
threads: int,
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| 72 |
log_every: int,
|
| 73 |
) -> int:
|
| 74 |
+
"""Stream every shard's vectors into the index. Keys are sequential global
|
| 75 |
+
row IDs assigned in shard-walk order (`shard.row_offset + i`).
|
| 76 |
"""
|
| 77 |
cumulative_rows = 0
|
| 78 |
started = time.monotonic()
|
| 79 |
bytes_added_since_log = 0
|
| 80 |
last_log_at = started
|
| 81 |
for shard_index, shard in enumerate(shards):
|
| 82 |
+
vectors = memmap_shard(shard, dimensions_full, dimensions_target)
|
| 83 |
keys = np.arange(
|
| 84 |
shard.row_offset, shard.row_offset + shard.row_count, dtype=np.uint64
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| 85 |
)
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|
|
| 104 |
return cumulative_rows
|
| 105 |
|
| 106 |
|
| 107 |
+
def evaluate_and_log(
|
| 108 |
+
index,
|
| 109 |
+
args,
|
| 110 |
+
shards: list[CollectionShard],
|
| 111 |
+
model_root: Path,
|
| 112 |
+
dimensions_full: int,
|
| 113 |
+
target_dim: int,
|
| 114 |
+
total_vectors: int,
|
| 115 |
+
build_seconds: float,
|
| 116 |
+
) -> None:
|
| 117 |
+
"""Run a Recall@k_recall + NDCG@k_ndcg sweep across the ef_search values
|
| 118 |
+
and append one JSONL row per ef to `args.stats_jsonl`. Uses the eval
|
| 119 |
+
helpers from `eval_recall` (gather queries, gather GT, metrics_at_k).
|
| 120 |
+
"""
|
| 121 |
+
from eval_recall import gather_ground_truth, gather_query_vectors
|
| 122 |
+
|
| 123 |
+
rng = np.random.default_rng(args.seed)
|
| 124 |
+
query_ids = np.sort(
|
| 125 |
+
rng.choice(total_vectors, size=args.num_queries, replace=False)
|
| 126 |
+
).astype(np.int64)
|
| 127 |
+
query_vectors_full = gather_query_vectors(shards, dimensions_full, query_ids)
|
| 128 |
+
if target_dim != dimensions_full:
|
| 129 |
+
query_vectors = np.asarray(query_vectors_full[:, :target_dim], dtype=np.float32)
|
| 130 |
+
norms = np.linalg.norm(query_vectors, axis=1, keepdims=True)
|
| 131 |
+
norms[norms == 0] = 1.0
|
| 132 |
+
query_vectors = (query_vectors / norms).astype(np.float16)
|
| 133 |
+
else:
|
| 134 |
+
query_vectors = query_vectors_full
|
| 135 |
+
|
| 136 |
+
expected_keys = gather_ground_truth(
|
| 137 |
+
model_root, args.output_suffix, shards, query_ids, args.k_ndcg
|
| 138 |
+
)
|
| 139 |
+
|
| 140 |
+
ef_values = [int(x) for x in args.ef_search_sweep.split(",") if x.strip()]
|
| 141 |
+
print(
|
| 142 |
+
f"sweeping ef_search over {ef_values} "
|
| 143 |
+
f"(recall@{args.k_recall}, ndcg@{args.k_ndcg}) ...",
|
| 144 |
+
flush=True,
|
| 145 |
+
)
|
| 146 |
+
print(
|
| 147 |
+
f"{'ef_search':>10} {'recall@'+str(args.k_recall):>12} "
|
| 148 |
+
f"{'ndcg@'+str(args.k_ndcg):>12} {'recall q/s':>12} {'ndcg q/s':>12}",
|
| 149 |
+
flush=True,
|
| 150 |
+
)
|
| 151 |
+
|
| 152 |
+
args.stats_jsonl.parent.mkdir(parents=True, exist_ok=True)
|
| 153 |
+
rows = []
|
| 154 |
+
build_rate = total_vectors / max(build_seconds, 1e-3)
|
| 155 |
+
index_bytes_estimate = (
|
| 156 |
+
total_vectors * target_dim * 2
|
| 157 |
+
+ total_vectors * args.connectivity * 4 * 2
|
| 158 |
+
)
|
| 159 |
+
|
| 160 |
+
def search_top(count: int) -> tuple[np.ndarray, float]:
|
| 161 |
+
started = time.monotonic()
|
| 162 |
+
results = index.search(query_vectors, count=count, threads=args.threads)
|
| 163 |
+
elapsed = time.monotonic() - started
|
| 164 |
+
raw_keys = np.asarray(results.keys, dtype=np.int64)
|
| 165 |
+
target = count - 1
|
| 166 |
+
actual = np.empty((args.num_queries, target), dtype=np.int64)
|
| 167 |
+
for row in range(args.num_queries):
|
| 168 |
+
without_self = raw_keys[row][raw_keys[row] != query_ids[row]][:target]
|
| 169 |
+
if without_self.shape[0] < target:
|
| 170 |
+
actual[row] = -1
|
| 171 |
+
actual[row, : without_self.shape[0]] = without_self
|
| 172 |
+
else:
|
| 173 |
+
actual[row] = without_self
|
| 174 |
+
return actual, elapsed
|
| 175 |
+
|
| 176 |
+
expected_recall = expected_keys[:, : args.k_recall]
|
| 177 |
+
expected_ndcg = expected_keys[:, : args.k_ndcg]
|
| 178 |
+
discount = 1.0 / np.log2(np.arange(2, args.k_ndcg + 2))
|
| 179 |
+
idcg = float(discount.sum())
|
| 180 |
+
|
| 181 |
+
for ef in ef_values:
|
| 182 |
+
index.expansion_search = ef
|
| 183 |
+
actual_recall, elapsed_recall = search_top(args.k_recall + 1)
|
| 184 |
+
membership_recall = (
|
| 185 |
+
actual_recall[:, :, None] == expected_recall[:, None, :]
|
| 186 |
+
).any(axis=2)
|
| 187 |
+
recall = float(membership_recall.sum(axis=1).mean()) / args.k_recall
|
| 188 |
+
|
| 189 |
+
actual_ndcg, elapsed_ndcg = search_top(args.k_ndcg + 1)
|
| 190 |
+
membership_ndcg = (
|
| 191 |
+
actual_ndcg[:, :, None] == expected_ndcg[:, None, :]
|
| 192 |
+
).any(axis=2)
|
| 193 |
+
dcg = (membership_ndcg * discount).sum(axis=1)
|
| 194 |
+
ndcg = float((dcg / idcg).mean())
|
| 195 |
+
|
| 196 |
+
rate_recall = args.num_queries / max(elapsed_recall, 1e-3)
|
| 197 |
+
rate_ndcg = args.num_queries / max(elapsed_ndcg, 1e-3)
|
| 198 |
+
print(
|
| 199 |
+
f"{ef:>10} {recall*100:>11.4f}% {ndcg*100:>11.4f}% "
|
| 200 |
+
f"{rate_recall:>12,.0f} {rate_ndcg:>12,.0f}",
|
| 201 |
+
flush=True,
|
| 202 |
+
)
|
| 203 |
+
rows.append(
|
| 204 |
+
{
|
| 205 |
+
"timestamp": time.strftime("%Y-%m-%dT%H:%M:%SZ", time.gmtime()),
|
| 206 |
+
"model_subdir": args.model_subdir,
|
| 207 |
+
"output_suffix": args.output_suffix,
|
| 208 |
+
"dimensions_full": dimensions_full,
|
| 209 |
+
"dimensions_indexed": target_dim,
|
| 210 |
+
"connectivity": args.connectivity,
|
| 211 |
+
"expansion_add": args.expansion_add,
|
| 212 |
+
"expansion_search": ef,
|
| 213 |
+
"metric": args.metric,
|
| 214 |
+
"dtype": args.dtype,
|
| 215 |
+
"total_vectors": int(total_vectors),
|
| 216 |
+
"num_queries": int(args.num_queries),
|
| 217 |
+
"k_recall": int(args.k_recall),
|
| 218 |
+
"k_ndcg": int(args.k_ndcg),
|
| 219 |
+
"recall": recall,
|
| 220 |
+
"ndcg": ndcg,
|
| 221 |
+
"queries_per_second_recall": rate_recall,
|
| 222 |
+
"queries_per_second_ndcg": rate_ndcg,
|
| 223 |
+
"build_seconds": build_seconds,
|
| 224 |
+
"build_vec_per_second": build_rate,
|
| 225 |
+
"index_bytes_estimate": int(index_bytes_estimate),
|
| 226 |
+
"build_threads": int(args.threads),
|
| 227 |
+
}
|
| 228 |
+
)
|
| 229 |
+
|
| 230 |
+
with open(args.stats_jsonl, "a") as file:
|
| 231 |
+
for row in rows:
|
| 232 |
+
file.write(json.dumps(row) + "\n")
|
| 233 |
+
print(
|
| 234 |
+
f"appended {len(rows)} rows to {args.stats_jsonl}",
|
| 235 |
+
flush=True,
|
| 236 |
+
)
|
| 237 |
+
|
| 238 |
+
|
| 239 |
def main() -> None:
|
| 240 |
parser = argparse.ArgumentParser()
|
| 241 |
+
parser.add_argument("--output", default="/home/ubuntu/USearchWiki")
|
|
|
|
|
|
|
|
|
|
|
|
|
| 242 |
parser.add_argument(
|
| 243 |
"--model-subdir",
|
| 244 |
required=True,
|
|
|
|
| 266 |
"--connectivity",
|
| 267 |
type=int,
|
| 268 |
default=16,
|
| 269 |
+
help="HNSW M, neighbors per node",
|
| 270 |
)
|
| 271 |
parser.add_argument(
|
| 272 |
"--expansion-add",
|
| 273 |
type=int,
|
| 274 |
default=256,
|
| 275 |
+
help="HNSW efConstruction; bumped from 128 to chase >=99% recall@10",
|
| 276 |
)
|
| 277 |
parser.add_argument(
|
| 278 |
"--metric",
|
|
|
|
| 291 |
default=10,
|
| 292 |
help="print a progress line every N shards",
|
| 293 |
)
|
| 294 |
+
parser.add_argument(
|
| 295 |
+
"--truncate-dim",
|
| 296 |
+
type=int,
|
| 297 |
+
default=0,
|
| 298 |
+
help="truncate stored embeddings to the leading N dimensions (Matryoshka). "
|
| 299 |
+
"0 means no truncation.",
|
| 300 |
+
)
|
| 301 |
+
parser.add_argument(
|
| 302 |
+
"--no-save",
|
| 303 |
+
action="store_true",
|
| 304 |
+
help="build the index in memory and drop it; do not write `{suffix}.usearch`. "
|
| 305 |
+
"Useful for the Matryoshka quality sweep where indexes are evaluated then thrown away.",
|
| 306 |
+
)
|
| 307 |
+
parser.add_argument(
|
| 308 |
+
"--ef-search-sweep",
|
| 309 |
+
default="",
|
| 310 |
+
help="comma-separated ef_search values to evaluate post-build. When set, runs "
|
| 311 |
+
"Recall@k_recall + NDCG@k_ndcg and appends a JSONL row per ef to --stats-jsonl.",
|
| 312 |
+
)
|
| 313 |
+
parser.add_argument("--num-queries", type=int, default=10000)
|
| 314 |
+
parser.add_argument("--k-recall", type=int, default=10)
|
| 315 |
+
parser.add_argument("--k-ndcg", type=int, default=100)
|
| 316 |
+
parser.add_argument(
|
| 317 |
+
"--stats-jsonl",
|
| 318 |
+
type=Path,
|
| 319 |
+
default=Path("/home/ubuntu/wikiverse-data/logs/index-stats.jsonl"),
|
| 320 |
+
help="JSONL file to append per-ef sweep rows to (only used with --ef-search-sweep)",
|
| 321 |
+
)
|
| 322 |
+
parser.add_argument("--seed", type=int, default=0)
|
| 323 |
args = parser.parse_args()
|
| 324 |
|
| 325 |
from usearch.index import Index # local import: heavy dependency
|
|
|
|
| 330 |
shards = discover_collection(model_root, args.output_suffix)
|
| 331 |
if not shards:
|
| 332 |
raise SystemExit(f"no .{args.output_suffix}.f16bin shards under {model_root}")
|
|
|
|
|
|
|
|
|
|
| 333 |
first_blob = resolve_lfs_pointer(shards[0].path)
|
| 334 |
with open(first_blob, "rb") as file:
|
| 335 |
_, dimensions = struct.unpack("<II", file.read(8))
|
|
|
|
| 342 |
flush=True,
|
| 343 |
)
|
| 344 |
|
| 345 |
+
if args.truncate_dim and args.truncate_dim != dimensions:
|
| 346 |
+
if args.truncate_dim > dimensions:
|
| 347 |
+
raise SystemExit(
|
| 348 |
+
f"--truncate-dim {args.truncate_dim} > native {dimensions}"
|
| 349 |
+
)
|
| 350 |
+
target_dim = args.truncate_dim
|
| 351 |
+
else:
|
| 352 |
+
target_dim = dimensions
|
| 353 |
|
| 354 |
print(
|
| 355 |
f"opening USearch index "
|
| 356 |
+
f"(dim={target_dim}, metric={args.metric}, dtype={args.dtype}, "
|
| 357 |
f"M={args.connectivity}, ef_add={args.expansion_add}, "
|
| 358 |
+
f"multi=False, threads={args.threads}, "
|
| 359 |
+
f"truncated_from={dimensions if target_dim != dimensions else None})",
|
| 360 |
flush=True,
|
| 361 |
)
|
| 362 |
index = Index(
|
| 363 |
+
ndim=target_dim,
|
| 364 |
metric=args.metric,
|
| 365 |
dtype=args.dtype,
|
| 366 |
connectivity=args.connectivity,
|
|
|
|
| 373 |
added = add_shards(
|
| 374 |
index=index,
|
| 375 |
shards=shards,
|
| 376 |
+
dimensions_full=dimensions,
|
| 377 |
+
dimensions_target=target_dim,
|
| 378 |
threads=args.threads,
|
| 379 |
log_every=args.log_every,
|
| 380 |
)
|
| 381 |
+
build_seconds = time.monotonic() - started
|
| 382 |
+
rate = added / max(build_seconds, 1e-3)
|
| 383 |
print(
|
| 384 |
+
f"added {added:,} vectors in {build_seconds:.0f}s "
|
| 385 |
f"({rate:,.0f} vec/s), index size now {len(index):,}",
|
| 386 |
flush=True,
|
| 387 |
)
|
| 388 |
|
| 389 |
+
if args.ef_search_sweep.strip():
|
| 390 |
+
evaluate_and_log(
|
| 391 |
+
index=index,
|
| 392 |
+
args=args,
|
| 393 |
+
shards=shards,
|
| 394 |
+
model_root=model_root,
|
| 395 |
+
dimensions_full=dimensions,
|
| 396 |
+
target_dim=target_dim,
|
| 397 |
+
total_vectors=total_vectors,
|
| 398 |
+
build_seconds=build_seconds,
|
| 399 |
+
)
|
| 400 |
+
|
| 401 |
+
if not args.no_save:
|
| 402 |
+
output_index_path = (
|
| 403 |
+
args.output_index
|
| 404 |
+
if args.output_index is not None
|
| 405 |
+
else model_root / f"{args.output_suffix}.usearch"
|
| 406 |
+
)
|
| 407 |
+
output_index_path.parent.mkdir(parents=True, exist_ok=True)
|
| 408 |
+
started = time.monotonic()
|
| 409 |
+
index.save(str(output_index_path))
|
| 410 |
+
elapsed_save = time.monotonic() - started
|
| 411 |
+
file_size_gb = output_index_path.stat().st_size / 1e9
|
| 412 |
+
print(
|
| 413 |
+
f"saved {output_index_path} ({file_size_gb:.2f} GB) in {elapsed_save:.0f}s",
|
| 414 |
+
flush=True,
|
| 415 |
+
)
|
| 416 |
+
else:
|
| 417 |
+
print("--no-save set; dropping index without writing to disk", flush=True)
|
| 418 |
|
| 419 |
|
| 420 |
if __name__ == "__main__":
|
|
@@ -21,7 +21,7 @@ from pathlib import Path
|
|
| 21 |
import httpx
|
| 22 |
import numpy as np
|
| 23 |
|
| 24 |
-
from
|
| 25 |
|
| 26 |
|
| 27 |
def select_shards(all_shards: list[Shard], gpu_id: int, world_size: int) -> list[Shard]:
|
|
|
|
| 21 |
import httpx
|
| 22 |
import numpy as np
|
| 23 |
|
| 24 |
+
from usearchwiki import Shard, load_lang, load_shard_texts, write_bin
|
| 25 |
|
| 26 |
|
| 27 |
def select_shards(all_shards: list[Shard], gpu_id: int, world_size: int) -> list[Shard]:
|
|
@@ -1,28 +1,36 @@
|
|
| 1 |
"""Late-chunking section embeddings via GTE-ModernColBERT-v1 (pylate).
|
| 2 |
|
| 3 |
-
|
| 4 |
-
|
| 5 |
-
|
| 6 |
-
|
| 7 |
-
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 8 |
vectors per section.
|
| 9 |
-
3.
|
| 10 |
-
embeddings) and `{wiki}/{stem}.body.sections.offsets.ibin`
|
| 11 |
-
offsets giving each article's section slice).
|
| 12 |
|
| 13 |
-
|
|
|
|
| 14 |
|
| 15 |
Usage:
|
| 16 |
-
|
| 17 |
--cache-dir /home/ubuntu/wikiverse-data/hf-cache \\
|
| 18 |
-
--output /home/ubuntu/
|
| 19 |
--model-subdir gte-moderncolbert-v1 \\
|
| 20 |
-
--
|
| 21 |
"""
|
| 22 |
|
| 23 |
from __future__ import annotations
|
| 24 |
|
| 25 |
import argparse
|
|
|
|
| 26 |
import os
|
| 27 |
import struct
|
| 28 |
import sys
|
|
@@ -45,11 +53,7 @@ from late_chunking import ( # noqa: E402
|
|
| 45 |
pool_section_vectors,
|
| 46 |
section_token_spans_from_offsets,
|
| 47 |
)
|
| 48 |
-
from
|
| 49 |
-
|
| 50 |
-
|
| 51 |
-
def select_shards(all_shards: list[Shard], gpu_id: int, world_size: int) -> list[Shard]:
|
| 52 |
-
return [s for i, s in enumerate(all_shards) if i % world_size == gpu_id]
|
| 53 |
|
| 54 |
|
| 55 |
def load_pylate_model(model_id: str, device: str, document_length: int):
|
|
@@ -108,7 +112,6 @@ def plan_articles_batched(
|
|
| 108 |
if not prefixed_texts:
|
| 109 |
return per_article_windows, per_article_n_sections
|
| 110 |
|
| 111 |
-
# One Rust-side tokenizer call for the whole batch.
|
| 112 |
encodings = tokenizer(
|
| 113 |
prefixed_texts,
|
| 114 |
add_special_tokens=False,
|
|
@@ -152,15 +155,9 @@ def encode_articles_batch(
|
|
| 152 |
document_prefix: str,
|
| 153 |
max_batch_tokens: int,
|
| 154 |
) -> list[np.ndarray]:
|
| 155 |
-
"""Encode a batch of articles into per-article (n_sections, dim) FP16 arrays.
|
| 156 |
-
|
| 157 |
-
Pads windows from across the batch into one or more padded forward passes,
|
| 158 |
-
splitting into sub-batches whenever the padded total exceeds
|
| 159 |
-
`max_batch_tokens` (so a few very long articles don't blow up GPU memory).
|
| 160 |
-
"""
|
| 161 |
embedding_dim = model[1].linear.out_features
|
| 162 |
|
| 163 |
-
# Plan windows for every article via a single batched tokenizer call.
|
| 164 |
per_article_windows, per_article_n_sections = plan_articles_batched(
|
| 165 |
texts=texts,
|
| 166 |
tokenizer=model.tokenizer,
|
|
@@ -169,17 +166,14 @@ def encode_articles_batch(
|
|
| 169 |
margin=margin,
|
| 170 |
)
|
| 171 |
|
| 172 |
-
# Flatten window list across articles, tag each with its article index.
|
| 173 |
all_windows: list[tuple[int, int, Window]] = []
|
| 174 |
for article_index, windows in enumerate(per_article_windows):
|
| 175 |
for window_index, window in enumerate(windows):
|
| 176 |
all_windows.append((article_index, window_index, window))
|
| 177 |
|
| 178 |
-
# Outputs scratch: one numpy array per (article, window) once we have it.
|
| 179 |
output_token_arrays: dict[tuple[int, int], np.ndarray] = {}
|
| 180 |
|
| 181 |
if all_windows:
|
| 182 |
-
# Sort windows by length to keep padding overhead per sub-batch low.
|
| 183 |
all_windows.sort(key=lambda triple: triple[2].length)
|
| 184 |
|
| 185 |
sub_batch: list[tuple[int, int, Window]] = []
|
|
@@ -231,7 +225,6 @@ def encode_articles_batch(
|
|
| 231 |
sub_batch_max_len = max(sub_batch_max_len, wrapped_len)
|
| 232 |
flush(sub_batch)
|
| 233 |
|
| 234 |
-
# Pool per article.
|
| 235 |
section_matrices: list[np.ndarray] = []
|
| 236 |
for article_index, (windows, n_sections) in enumerate(
|
| 237 |
zip(per_article_windows, per_article_n_sections, strict=True)
|
|
@@ -357,7 +350,6 @@ def process_shard(
|
|
| 357 |
)
|
| 358 |
|
| 359 |
elapsed = time.monotonic() - started
|
| 360 |
-
embedding_dim = model[1].linear.out_features
|
| 361 |
|
| 362 |
write_shard_outputs(
|
| 363 |
shard_dir=output_root / shard.wikiname,
|
|
@@ -375,103 +367,177 @@ def process_shard(
|
|
| 375 |
}
|
| 376 |
|
| 377 |
|
|
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|
|
|
|
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|
| 378 |
def main() -> None:
|
| 379 |
parser = argparse.ArgumentParser()
|
| 380 |
parser.add_argument("--cache-dir", default="/home/ubuntu/wikiverse-data/hf-cache")
|
| 381 |
-
parser.add_argument("--output", default="/home/ubuntu/
|
| 382 |
parser.add_argument("--model-subdir", default="gte-moderncolbert-v1")
|
| 383 |
parser.add_argument("--model-id", default="lightonai/GTE-ModernColBERT-v1")
|
| 384 |
-
parser.add_argument(
|
| 385 |
-
"--wiki", required=True, help="single language code (enwiki, dewiki, ...)"
|
| 386 |
-
)
|
| 387 |
-
parser.add_argument("--gpu-id", type=int, default=0)
|
| 388 |
-
parser.add_argument("--world-size", type=int, default=1)
|
| 389 |
parser.add_argument("--context-limit", type=int, default=8192)
|
| 390 |
parser.add_argument("--margin", type=int, default=256)
|
| 391 |
parser.add_argument("--text-column", default="text", choices=["text", "title"])
|
| 392 |
parser.add_argument("--output-suffix", default="body")
|
| 393 |
parser.add_argument("--id-column", default="id")
|
| 394 |
-
parser.add_argument(
|
| 395 |
-
|
| 396 |
-
type=int,
|
| 397 |
-
default=64,
|
| 398 |
-
help="number of articles' windows to plan in one cross-article batch",
|
| 399 |
-
)
|
| 400 |
-
parser.add_argument(
|
| 401 |
-
"--max-batch-tokens",
|
| 402 |
-
type=int,
|
| 403 |
-
default=131072,
|
| 404 |
-
help="cap on `padded_batch_size * padded_max_length` per forward pass; "
|
| 405 |
-
"splits the cross-article batch into sub-batches when needed to keep "
|
| 406 |
-
"GPU memory bounded",
|
| 407 |
-
)
|
| 408 |
args = parser.parse_args()
|
| 409 |
|
| 410 |
-
|
| 411 |
-
|
| 412 |
-
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|
| 413 |
|
| 414 |
output_root = Path(args.output) / args.model_subdir
|
| 415 |
-
|
| 416 |
-
|
| 417 |
-
|
| 418 |
-
|
| 419 |
-
|
| 420 |
-
|
| 421 |
-
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| 422 |
-
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-
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-
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-
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|
| 426 |
print(
|
| 427 |
-
f"
|
|
|
|
|
|
|
|
|
|
| 428 |
flush=True,
|
| 429 |
)
|
| 430 |
if not pending:
|
| 431 |
return
|
| 432 |
|
| 433 |
-
|
| 434 |
-
|
| 435 |
-
|
| 436 |
-
|
| 437 |
-
|
|
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|
|
| 438 |
|
| 439 |
-
|
| 440 |
-
|
| 441 |
-
total_sections = 0
|
| 442 |
for shard in pending:
|
| 443 |
-
|
| 444 |
-
|
| 445 |
-
|
| 446 |
-
|
| 447 |
-
|
| 448 |
-
|
| 449 |
-
|
| 450 |
-
|
| 451 |
-
|
| 452 |
-
margin=args.margin,
|
| 453 |
-
document_prefix=document_prefix,
|
| 454 |
-
suffix=args.output_suffix,
|
| 455 |
-
text_column=args.text_column,
|
| 456 |
-
id_column=args.id_column,
|
| 457 |
-
article_batch_size=args.article_batch_size,
|
| 458 |
-
max_batch_tokens=args.max_batch_tokens,
|
| 459 |
-
)
|
| 460 |
-
total_articles += stats["n_articles"]
|
| 461 |
-
total_sections += stats["n_sections_total"]
|
| 462 |
-
rate = stats["n_articles"] / max(stats["elapsed_seconds"], 1e-3)
|
| 463 |
-
print(
|
| 464 |
-
f"[gpu{args.gpu_id} pylate] {shard.wikiname}/{shard.stem}: "
|
| 465 |
-
f"{stats['n_articles']} articles ({stats['n_zero_articles']} zero), "
|
| 466 |
-
f"{stats['n_sections_total']:,} sections in {stats['elapsed_seconds']:.1f}s "
|
| 467 |
-
f"-> {rate:.1f} doc/s",
|
| 468 |
-
flush=True,
|
| 469 |
-
)
|
| 470 |
|
| 471 |
-
|
|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 472 |
print(
|
| 473 |
-
f"
|
| 474 |
-
f"{
|
|
|
|
| 475 |
flush=True,
|
| 476 |
)
|
| 477 |
|
|
|
|
| 1 |
"""Late-chunking section embeddings via GTE-ModernColBERT-v1 (pylate).
|
| 2 |
|
| 3 |
+
Pool scheduler: enumerates every (wiki, shard) tuple in the corpus, filters
|
| 4 |
+
out already-completed outputs, and dispatches the rest across `num_gpus`
|
| 5 |
+
long-running worker processes via a shared `mp.Queue`. Each worker loads the
|
| 6 |
+
pylate model once and processes shards as they arrive, so small single-shard
|
| 7 |
+
wikis don't leave 7 GPUs idle.
|
| 8 |
+
|
| 9 |
+
For each parquet shard a worker:
|
| 10 |
+
1. Loads articles (text + id).
|
| 11 |
+
2. Per article: finds section char spans, tokenizes ("[D] " + text) once,
|
| 12 |
+
plans windows via `late_chunking`, forwards each window through the
|
| 13 |
+
transformer + projection + L2 normalization, mean-pools the core token
|
| 14 |
vectors per section.
|
| 15 |
+
3. Writes per-shard `{wiki}/{stem}.body.sections.f16bin` (concatenated
|
| 16 |
+
section embeddings) and `{wiki}/{stem}.body.sections.offsets.ibin`
|
| 17 |
+
(cumulative offsets giving each article's section slice).
|
| 18 |
|
| 19 |
+
Resume-safe by construction: shards whose output files already exist are
|
| 20 |
+
skipped before being added to the queue.
|
| 21 |
|
| 22 |
Usage:
|
| 23 |
+
python embed_sections.py \\
|
| 24 |
--cache-dir /home/ubuntu/wikiverse-data/hf-cache \\
|
| 25 |
+
--output /home/ubuntu/USearchWiki \\
|
| 26 |
--model-subdir gte-moderncolbert-v1 \\
|
| 27 |
+
--num-gpus 8
|
| 28 |
"""
|
| 29 |
|
| 30 |
from __future__ import annotations
|
| 31 |
|
| 32 |
import argparse
|
| 33 |
+
import multiprocessing as mp
|
| 34 |
import os
|
| 35 |
import struct
|
| 36 |
import sys
|
|
|
|
| 53 |
pool_section_vectors,
|
| 54 |
section_token_spans_from_offsets,
|
| 55 |
)
|
| 56 |
+
from usearchwiki import Shard, find_snapshot, load_lang # noqa: E402
|
|
|
|
|
|
|
|
|
|
|
|
|
| 57 |
|
| 58 |
|
| 59 |
def load_pylate_model(model_id: str, device: str, document_length: int):
|
|
|
|
| 112 |
if not prefixed_texts:
|
| 113 |
return per_article_windows, per_article_n_sections
|
| 114 |
|
|
|
|
| 115 |
encodings = tokenizer(
|
| 116 |
prefixed_texts,
|
| 117 |
add_special_tokens=False,
|
|
|
|
| 155 |
document_prefix: str,
|
| 156 |
max_batch_tokens: int,
|
| 157 |
) -> list[np.ndarray]:
|
| 158 |
+
"""Encode a batch of articles into per-article (n_sections, dim) FP16 arrays."""
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 159 |
embedding_dim = model[1].linear.out_features
|
| 160 |
|
|
|
|
| 161 |
per_article_windows, per_article_n_sections = plan_articles_batched(
|
| 162 |
texts=texts,
|
| 163 |
tokenizer=model.tokenizer,
|
|
|
|
| 166 |
margin=margin,
|
| 167 |
)
|
| 168 |
|
|
|
|
| 169 |
all_windows: list[tuple[int, int, Window]] = []
|
| 170 |
for article_index, windows in enumerate(per_article_windows):
|
| 171 |
for window_index, window in enumerate(windows):
|
| 172 |
all_windows.append((article_index, window_index, window))
|
| 173 |
|
|
|
|
| 174 |
output_token_arrays: dict[tuple[int, int], np.ndarray] = {}
|
| 175 |
|
| 176 |
if all_windows:
|
|
|
|
| 177 |
all_windows.sort(key=lambda triple: triple[2].length)
|
| 178 |
|
| 179 |
sub_batch: list[tuple[int, int, Window]] = []
|
|
|
|
| 225 |
sub_batch_max_len = max(sub_batch_max_len, wrapped_len)
|
| 226 |
flush(sub_batch)
|
| 227 |
|
|
|
|
| 228 |
section_matrices: list[np.ndarray] = []
|
| 229 |
for article_index, (windows, n_sections) in enumerate(
|
| 230 |
zip(per_article_windows, per_article_n_sections, strict=True)
|
|
|
|
| 350 |
)
|
| 351 |
|
| 352 |
elapsed = time.monotonic() - started
|
|
|
|
| 353 |
|
| 354 |
write_shard_outputs(
|
| 355 |
shard_dir=output_root / shard.wikiname,
|
|
|
|
| 367 |
}
|
| 368 |
|
| 369 |
|
| 370 |
+
def worker(gpu_id: int, work_queue, args_dict: dict) -> None:
|
| 371 |
+
"""Pin to one GPU, load the model once, drain shards from the queue."""
|
| 372 |
+
os.environ["CUDA_VISIBLE_DEVICES"] = str(gpu_id)
|
| 373 |
+
device = "cuda:0"
|
| 374 |
+
model = load_pylate_model(
|
| 375 |
+
args_dict["model_id"], device, args_dict["context_limit"]
|
| 376 |
+
)
|
| 377 |
+
cls_id = model.tokenizer.cls_token_id
|
| 378 |
+
sep_id = model.tokenizer.sep_token_id
|
| 379 |
+
pad_id = model.tokenizer.pad_token_id
|
| 380 |
+
document_prefix = model.document_prefix
|
| 381 |
+
output_root = Path(args_dict["output"]) / args_dict["model_subdir"]
|
| 382 |
+
|
| 383 |
+
n_processed = 0
|
| 384 |
+
n_failed = 0
|
| 385 |
+
started = time.monotonic()
|
| 386 |
+
while True:
|
| 387 |
+
try:
|
| 388 |
+
item = work_queue.get(timeout=5.0)
|
| 389 |
+
except Exception:
|
| 390 |
+
print(f"[gpu{gpu_id}] queue idle 5s, exiting", flush=True)
|
| 391 |
+
break
|
| 392 |
+
if item is None:
|
| 393 |
+
break
|
| 394 |
+
shard: Shard = item
|
| 395 |
+
try:
|
| 396 |
+
stats = process_shard(
|
| 397 |
+
shard=shard,
|
| 398 |
+
output_root=output_root,
|
| 399 |
+
model=model,
|
| 400 |
+
cls_id=cls_id,
|
| 401 |
+
sep_id=sep_id,
|
| 402 |
+
pad_id=pad_id,
|
| 403 |
+
device=device,
|
| 404 |
+
context_limit=args_dict["context_limit"],
|
| 405 |
+
margin=args_dict["margin"],
|
| 406 |
+
document_prefix=document_prefix,
|
| 407 |
+
suffix=args_dict["suffix"],
|
| 408 |
+
text_column=args_dict["text_column"],
|
| 409 |
+
id_column=args_dict["id_column"],
|
| 410 |
+
article_batch_size=args_dict["article_batch_size"],
|
| 411 |
+
max_batch_tokens=args_dict["max_batch_tokens"],
|
| 412 |
+
)
|
| 413 |
+
n_processed += 1
|
| 414 |
+
rate = stats["n_articles"] / max(stats["elapsed_seconds"], 1e-3)
|
| 415 |
+
print(
|
| 416 |
+
f"[gpu{gpu_id}] {shard.wikiname}/{shard.stem}: "
|
| 417 |
+
f"{stats['n_articles']} articles "
|
| 418 |
+
f"({stats['n_zero_articles']} zero), "
|
| 419 |
+
f"{stats['n_sections_total']:,} sections in "
|
| 420 |
+
f"{stats['elapsed_seconds']:.0f}s -> {rate:.1f} doc/s",
|
| 421 |
+
flush=True,
|
| 422 |
+
)
|
| 423 |
+
except Exception as exc:
|
| 424 |
+
n_failed += 1
|
| 425 |
+
print(
|
| 426 |
+
f"[gpu{gpu_id}] {shard.wikiname}/{shard.stem}: FAILED: {exc!r}",
|
| 427 |
+
flush=True,
|
| 428 |
+
)
|
| 429 |
+
|
| 430 |
+
elapsed = time.monotonic() - started
|
| 431 |
+
print(
|
| 432 |
+
f"[gpu{gpu_id}] worker DONE: {n_processed} shards processed, "
|
| 433 |
+
f"{n_failed} failed, {elapsed:.0f}s",
|
| 434 |
+
flush=True,
|
| 435 |
+
)
|
| 436 |
+
|
| 437 |
+
|
| 438 |
def main() -> None:
|
| 439 |
parser = argparse.ArgumentParser()
|
| 440 |
parser.add_argument("--cache-dir", default="/home/ubuntu/wikiverse-data/hf-cache")
|
| 441 |
+
parser.add_argument("--output", default="/home/ubuntu/USearchWiki")
|
| 442 |
parser.add_argument("--model-subdir", default="gte-moderncolbert-v1")
|
| 443 |
parser.add_argument("--model-id", default="lightonai/GTE-ModernColBERT-v1")
|
| 444 |
+
parser.add_argument("--num-gpus", type=int, default=8)
|
|
|
|
|
|
|
|
|
|
|
|
|
| 445 |
parser.add_argument("--context-limit", type=int, default=8192)
|
| 446 |
parser.add_argument("--margin", type=int, default=256)
|
| 447 |
parser.add_argument("--text-column", default="text", choices=["text", "title"])
|
| 448 |
parser.add_argument("--output-suffix", default="body")
|
| 449 |
parser.add_argument("--id-column", default="id")
|
| 450 |
+
parser.add_argument("--article-batch-size", type=int, default=64)
|
| 451 |
+
parser.add_argument("--max-batch-tokens", type=int, default=131072)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 452 |
args = parser.parse_args()
|
| 453 |
|
| 454 |
+
snapshot = find_snapshot(args.cache_dir)
|
| 455 |
+
wiki_names = sorted(
|
| 456 |
+
d.name for d in (snapshot / "data").iterdir() if d.is_dir()
|
| 457 |
+
)
|
| 458 |
+
print(
|
| 459 |
+
f"discovering shards across {len(wiki_names)} wikis under "
|
| 460 |
+
f"{snapshot.parent.name}/{snapshot.name} ...",
|
| 461 |
+
flush=True,
|
| 462 |
+
)
|
| 463 |
|
| 464 |
output_root = Path(args.output) / args.model_subdir
|
| 465 |
+
pending: list[Shard] = []
|
| 466 |
+
skipped = 0
|
| 467 |
+
for wiki_name in wiki_names:
|
| 468 |
+
try:
|
| 469 |
+
shards = load_lang(args.cache_dir, wiki_name)
|
| 470 |
+
except Exception:
|
| 471 |
+
continue
|
| 472 |
+
for shard in shards:
|
| 473 |
+
existing = (
|
| 474 |
+
output_root
|
| 475 |
+
/ shard.wikiname
|
| 476 |
+
/ f"{shard.stem}.{args.output_suffix}.sections.f16bin"
|
| 477 |
+
)
|
| 478 |
+
if existing.exists():
|
| 479 |
+
skipped += 1
|
| 480 |
+
continue
|
| 481 |
+
pending.append(shard)
|
| 482 |
+
pending.sort(key=lambda shard: shard.path.stat().st_size, reverse=True)
|
| 483 |
print(
|
| 484 |
+
f" {skipped} shards already done; {len(pending)} pending; "
|
| 485 |
+
f"largest parquet: {pending[0].path.stat().st_size / 1e6:.0f} MB"
|
| 486 |
+
if pending
|
| 487 |
+
else f" {skipped} shards already done; nothing pending",
|
| 488 |
flush=True,
|
| 489 |
)
|
| 490 |
if not pending:
|
| 491 |
return
|
| 492 |
|
| 493 |
+
args_dict = {
|
| 494 |
+
"model_id": args.model_id,
|
| 495 |
+
"context_limit": args.context_limit,
|
| 496 |
+
"margin": args.margin,
|
| 497 |
+
"output": args.output,
|
| 498 |
+
"model_subdir": args.model_subdir,
|
| 499 |
+
"suffix": args.output_suffix,
|
| 500 |
+
"text_column": args.text_column,
|
| 501 |
+
"id_column": args.id_column,
|
| 502 |
+
"article_batch_size": args.article_batch_size,
|
| 503 |
+
"max_batch_tokens": args.max_batch_tokens,
|
| 504 |
+
}
|
| 505 |
|
| 506 |
+
ctx = mp.get_context("fork")
|
| 507 |
+
work_queue: mp.Queue = ctx.Queue()
|
|
|
|
| 508 |
for shard in pending:
|
| 509 |
+
work_queue.put(shard)
|
| 510 |
+
for _ in range(args.num_gpus):
|
| 511 |
+
work_queue.put(None)
|
| 512 |
+
|
| 513 |
+
workers: list[mp.Process] = []
|
| 514 |
+
for gpu_id in range(args.num_gpus):
|
| 515 |
+
process = ctx.Process(target=worker, args=(gpu_id, work_queue, args_dict))
|
| 516 |
+
process.start()
|
| 517 |
+
workers.append(process)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 518 |
|
| 519 |
+
started = time.monotonic()
|
| 520 |
+
print(
|
| 521 |
+
f"started {len(workers)} GPU workers at "
|
| 522 |
+
f"{time.strftime('%Y-%m-%dT%H:%M:%S')}; "
|
| 523 |
+
f"{len(pending)} shards in queue",
|
| 524 |
+
flush=True,
|
| 525 |
+
)
|
| 526 |
+
|
| 527 |
+
failed = 0
|
| 528 |
+
for process in workers:
|
| 529 |
+
process.join()
|
| 530 |
+
if process.exitcode != 0:
|
| 531 |
+
failed += 1
|
| 532 |
+
print(
|
| 533 |
+
f" worker pid {process.pid} exited code {process.exitcode}",
|
| 534 |
+
flush=True,
|
| 535 |
+
)
|
| 536 |
+
elapsed = time.monotonic() - started
|
| 537 |
print(
|
| 538 |
+
f"DONE: {len(pending)} shards in {elapsed:.0f}s "
|
| 539 |
+
f"({len(pending) / max(elapsed, 1e-3):.2f} shards/s); "
|
| 540 |
+
f"{failed} workers failed",
|
| 541 |
flush=True,
|
| 542 |
)
|
| 543 |
|
|
@@ -30,7 +30,7 @@ import numpy as np
|
|
| 30 |
REPO_ROOT = Path(__file__).resolve().parent
|
| 31 |
sys.path.insert(0, str(REPO_ROOT))
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from
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CollectionShard,
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discover_collection,
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resolve_lfs_pointer,
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return out
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def
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def main() -> None:
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parser.add_argument("--output-suffix", default="body", choices=["body", "title"])
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parser.add_argument("--index", type=Path, default=None)
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parser.add_argument("--num-queries", type=int, default=10000)
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parser.add_argument(
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parser.add_argument(
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"--ef-search",
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default="64,128,256,512",
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help="comma-separated efSearch values to sweep",
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)
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parser.add_argument(
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started = time.monotonic()
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query_vectors = gather_query_vectors(shards, dimensions, query_ids)
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expected_keys = gather_ground_truth(
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model_root, args.output_suffix, shards, query_ids, args.
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)
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print(f" loaded in {time.monotonic()-started:.1f}s", flush=True)
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ef_values = [int(x) for x in args.ef_search.split(",") if x.strip()]
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print(
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started = time.monotonic()
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results = index.search(query_vectors, count=
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elapsed = time.monotonic() - started
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if __name__ == "__main__":
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REPO_ROOT = Path(__file__).resolve().parent
|
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sys.path.insert(0, str(REPO_ROOT))
|
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|
| 33 |
+
from usearchwiki import ( # noqa: E402
|
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CollectionShard,
|
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discover_collection,
|
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resolve_lfs_pointer,
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return out
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+
def metrics_at_k(
|
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+
expected_keys: np.ndarray,
|
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+
actual_keys: np.ndarray,
|
| 127 |
+
k_recall: int,
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+
k_ndcg: int,
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+
) -> tuple[float, float]:
|
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+
"""Compute strict Recall@k_recall and binary NDCG@k_ndcg.
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+
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+
`expected_keys` is the exact top-k_max ground truth (descending
|
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+
similarity), `actual_keys` is the predicted top-k_max from the index
|
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+
(self-match already removed). Both arrays are
|
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+
`(n_queries, k_max)` with `k_max >= max(k_recall, k_ndcg)`.
|
| 136 |
+
|
| 137 |
+
Strict recall: predicted top-k_recall key counts iff it appears in GT
|
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+
*top-k_recall*. Standard ANN-Benchmarks definition.
|
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+
|
| 140 |
+
Binary NDCG: predicted top-k_ndcg key counts iff it appears in GT
|
| 141 |
+
*top-k_ndcg*. Both rankings are graded by their position in their
|
| 142 |
+
respective top-lists, so a predicted #1 that matches GT #50 still
|
| 143 |
+
contributes 1 / log2(2) at rank 1 in DCG.
|
| 144 |
+
"""
|
| 145 |
+
# Recall@k_recall: small bool matrix from k_recall slices on both sides.
|
| 146 |
+
rec_actual = actual_keys[:, :k_recall]
|
| 147 |
+
rec_expected = expected_keys[:, :k_recall]
|
| 148 |
+
membership_recall = (rec_actual[:, :, None] == rec_expected[:, None, :]).any(axis=2)
|
| 149 |
+
recall = float(membership_recall.sum(axis=1).mean()) / k_recall
|
| 150 |
+
|
| 151 |
+
# NDCG@k_ndcg: bigger bool matrix from k_ndcg slices.
|
| 152 |
+
ndcg_actual = actual_keys[:, :k_ndcg]
|
| 153 |
+
ndcg_expected = expected_keys[:, :k_ndcg]
|
| 154 |
+
membership_ndcg = (
|
| 155 |
+
ndcg_actual[:, :, None] == ndcg_expected[:, None, :]
|
| 156 |
+
).any(axis=2)
|
| 157 |
+
discount = 1.0 / np.log2(np.arange(2, k_ndcg + 2))
|
| 158 |
+
dcg = (membership_ndcg * discount).sum(axis=1)
|
| 159 |
+
idcg = float(discount.sum()) # |GT| >= k_ndcg by construction
|
| 160 |
+
ndcg = float((dcg / idcg).mean())
|
| 161 |
+
return recall, ndcg
|
| 162 |
|
| 163 |
|
| 164 |
def main() -> None:
|
|
|
|
| 168 |
parser.add_argument("--output-suffix", default="body", choices=["body", "title"])
|
| 169 |
parser.add_argument("--index", type=Path, default=None)
|
| 170 |
parser.add_argument("--num-queries", type=int, default=10000)
|
| 171 |
+
parser.add_argument(
|
| 172 |
+
"--k-recall",
|
| 173 |
+
type=int,
|
| 174 |
+
default=10,
|
| 175 |
+
help="cutoff for Recall@k",
|
| 176 |
+
)
|
| 177 |
+
parser.add_argument(
|
| 178 |
+
"--k-ndcg",
|
| 179 |
+
type=int,
|
| 180 |
+
default=100,
|
| 181 |
+
help="cutoff for NDCG@k; also drives how many GT neighbors are loaded "
|
| 182 |
+
"and how many results we ask the index for (k_ndcg + 1 to drop self)",
|
| 183 |
+
)
|
| 184 |
parser.add_argument(
|
| 185 |
"--ef-search",
|
| 186 |
+
default="16,32,64,128,256,512,1024",
|
| 187 |
help="comma-separated efSearch values to sweep",
|
| 188 |
)
|
| 189 |
parser.add_argument(
|
|
|
|
| 238 |
started = time.monotonic()
|
| 239 |
query_vectors = gather_query_vectors(shards, dimensions, query_ids)
|
| 240 |
expected_keys = gather_ground_truth(
|
| 241 |
+
model_root, args.output_suffix, shards, query_ids, args.k_ndcg
|
| 242 |
)
|
| 243 |
print(f" loaded in {time.monotonic()-started:.1f}s", flush=True)
|
| 244 |
|
| 245 |
ef_values = [int(x) for x in args.ef_search.split(",") if x.strip()]
|
| 246 |
+
print(
|
| 247 |
+
f"sweeping ef_search over {ef_values} "
|
| 248 |
+
f"(recall@{args.k_recall}, ndcg@{args.k_ndcg}) ...",
|
| 249 |
+
flush=True,
|
| 250 |
+
)
|
| 251 |
+
print(
|
| 252 |
+
f"{'ef_search':>10} "
|
| 253 |
+
f"{'recall@'+str(args.k_recall):>12} {'recall q/s':>12} "
|
| 254 |
+
f"{'ndcg@'+str(args.k_ndcg):>12} {'ndcg q/s':>12}"
|
| 255 |
+
)
|
| 256 |
+
|
| 257 |
+
# Two search calls per ef: one with count=k_recall+1 to get a meaningful
|
| 258 |
+
# recall@k_recall curve at the requested ef, and one with count=k_ndcg+1
|
| 259 |
+
# for NDCG. USearch coerces the internal expansion to >= count, so a
|
| 260 |
+
# single shared count=k_ndcg+1 would flatten the recall@k_recall sweep
|
| 261 |
+
# at low ef (effective ef becomes k_ndcg+1 regardless).
|
| 262 |
+
def search_top(count: int) -> tuple[np.ndarray, float]:
|
| 263 |
started = time.monotonic()
|
| 264 |
+
results = index.search(query_vectors, count=count, threads=args.threads)
|
| 265 |
elapsed = time.monotonic() - started
|
| 266 |
+
raw_keys = np.asarray(results.keys, dtype=np.int64)
|
| 267 |
+
actual = np.empty((args.num_queries, count - 1), dtype=np.int64)
|
| 268 |
+
target = count - 1
|
| 269 |
+
for row in range(args.num_queries):
|
| 270 |
+
without_self = raw_keys[row][raw_keys[row] != query_ids[row]][:target]
|
| 271 |
+
if without_self.shape[0] < target:
|
| 272 |
+
actual[row] = -1
|
| 273 |
+
actual[row, : without_self.shape[0]] = without_self
|
| 274 |
+
else:
|
| 275 |
+
actual[row] = without_self
|
| 276 |
+
return actual, elapsed
|
| 277 |
+
|
| 278 |
+
expected_recall = expected_keys[:, : args.k_recall]
|
| 279 |
+
expected_ndcg = expected_keys[:, : args.k_ndcg]
|
| 280 |
+
discount = 1.0 / np.log2(np.arange(2, args.k_ndcg + 2))
|
| 281 |
+
idcg = float(discount.sum())
|
| 282 |
+
|
| 283 |
+
for ef in ef_values:
|
| 284 |
+
index.expansion_search = ef
|
| 285 |
+
# --- recall sweep (small count) ---
|
| 286 |
+
actual_recall, elapsed_recall = search_top(args.k_recall + 1)
|
| 287 |
+
membership_recall = (
|
| 288 |
+
actual_recall[:, :, None] == expected_recall[:, None, :]
|
| 289 |
+
).any(axis=2)
|
| 290 |
+
recall = float(membership_recall.sum(axis=1).mean()) / args.k_recall
|
| 291 |
+
rate_recall = args.num_queries / max(elapsed_recall, 1e-3)
|
| 292 |
+
# --- ndcg sweep (large count) ---
|
| 293 |
+
actual_ndcg, elapsed_ndcg = search_top(args.k_ndcg + 1)
|
| 294 |
+
membership_ndcg = (
|
| 295 |
+
actual_ndcg[:, :, None] == expected_ndcg[:, None, :]
|
| 296 |
+
).any(axis=2)
|
| 297 |
+
dcg = (membership_ndcg * discount).sum(axis=1)
|
| 298 |
+
ndcg = float((dcg / idcg).mean())
|
| 299 |
+
rate_ndcg = args.num_queries / max(elapsed_ndcg, 1e-3)
|
| 300 |
+
print(
|
| 301 |
+
f"{ef:>10} "
|
| 302 |
+
f"{recall*100:>11.4f}% {rate_recall:>12,.0f} "
|
| 303 |
+
f"{ndcg*100:>11.4f}% {rate_ndcg:>12,.0f}"
|
| 304 |
+
)
|
| 305 |
|
| 306 |
|
| 307 |
if __name__ == "__main__":
|
|
@@ -1,13 +1,29 @@
|
|
| 1 |
"""Compute exact global k-NN ground truth for an embedding collection.
|
| 2 |
|
| 3 |
-
|
| 4 |
-
|
| 5 |
-
|
| 6 |
-
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 7 |
|
| 8 |
Usage:
|
| 9 |
-
python ground_truth.py --
|
| 10 |
-
--model-subdir qwen3-embedding-0.6b
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 11 |
"""
|
| 12 |
|
| 13 |
from __future__ import annotations
|
|
@@ -16,12 +32,21 @@ import argparse
|
|
| 16 |
import multiprocessing as mp
|
| 17 |
import os
|
| 18 |
import struct
|
|
|
|
| 19 |
import time
|
| 20 |
from pathlib import Path
|
| 21 |
|
| 22 |
import numpy as np
|
| 23 |
|
| 24 |
-
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 25 |
CollectionShard,
|
| 26 |
discover_collection,
|
| 27 |
resolve_lfs_pointer,
|
|
@@ -29,13 +54,12 @@ from wikiverse import (
|
|
| 29 |
)
|
| 30 |
|
| 31 |
|
| 32 |
-
def
|
| 33 |
model_root: Path,
|
| 34 |
suffix: str,
|
| 35 |
dimensions: int,
|
| 36 |
shards: list[CollectionShard],
|
| 37 |
) -> np.ndarray:
|
| 38 |
-
"""Allocate one large host array and stream every shard body into its row range."""
|
| 39 |
total_vectors = sum(shard.row_count for shard in shards)
|
| 40 |
embeddings = np.empty((total_vectors, dimensions), dtype=np.float16)
|
| 41 |
started = time.monotonic()
|
|
@@ -60,269 +84,92 @@ def load_collection(
|
|
| 60 |
flush=True,
|
| 61 |
)
|
| 62 |
|
| 63 |
-
# Sanitize: a handful of rows in some collections contain
|
| 64 |
-
# (the embedder emitted noise for empty/degenerate articles).
|
| 65 |
-
#
|
| 66 |
-
# Coerce any non-finite row to a clean zero vector.
|
| 67 |
started = time.monotonic()
|
| 68 |
-
bad_rows
|
| 69 |
-
|
| 70 |
-
|
| 71 |
-
chunk_end = min(chunk_start + chunk_rows, total_vectors)
|
| 72 |
chunk = embeddings[chunk_start:chunk_end]
|
| 73 |
bad_mask = ~np.isfinite(chunk).all(axis=1)
|
| 74 |
if bad_mask.any():
|
| 75 |
-
|
| 76 |
-
bad_rows.extend((chunk_start + local_bad).tolist())
|
| 77 |
chunk[bad_mask] = 0
|
| 78 |
elapsed = time.monotonic() - started
|
| 79 |
print(
|
| 80 |
-
f"sanitized {
|
| 81 |
flush=True,
|
| 82 |
)
|
| 83 |
-
if bad_rows:
|
| 84 |
-
preview = bad_rows[:8]
|
| 85 |
-
print(f" bad row indices (first 8): {preview}", flush=True)
|
| 86 |
return embeddings
|
| 87 |
|
| 88 |
|
| 89 |
-
def
|
| 90 |
gpu_index: int,
|
| 91 |
num_gpus: int,
|
| 92 |
embeddings: np.ndarray,
|
| 93 |
-
dimensions: int,
|
| 94 |
num_neighbors: int,
|
| 95 |
query_tile_rows: int,
|
| 96 |
candidate_tile_rows: int,
|
| 97 |
scratch_dir: Path,
|
| 98 |
) -> None:
|
| 99 |
-
"""One process per GPU. Streams the whole corpus past a resident query stripe."""
|
| 100 |
os.environ["CUDA_VISIBLE_DEVICES"] = str(gpu_index)
|
| 101 |
-
import cupy # imported after CUDA_VISIBLE_DEVICES so this process binds to one GPU
|
| 102 |
-
import torch # only used for its highly-optimized fused top-k kernel
|
| 103 |
-
|
| 104 |
total_vectors = embeddings.shape[0]
|
| 105 |
stripe_start = (total_vectors * gpu_index) // num_gpus
|
| 106 |
stripe_end = (total_vectors * (gpu_index + 1)) // num_gpus
|
| 107 |
-
stripe_size = stripe_end - stripe_start
|
| 108 |
-
keep = num_neighbors + 1 # +1 so we always have headroom to drop the self-match
|
| 109 |
-
|
| 110 |
print(
|
| 111 |
-
f"[gpu{gpu_index}] queries [{stripe_start:,}, {stripe_end:,}) "
|
| 112 |
-
f"
|
| 113 |
flush=True,
|
| 114 |
)
|
| 115 |
-
|
| 116 |
-
|
| 117 |
-
|
| 118 |
-
|
| 119 |
-
|
| 120 |
-
|
| 121 |
-
|
| 122 |
-
|
| 123 |
-
pinned_memory = cupy.cuda.alloc_pinned_memory(
|
| 124 |
-
candidate_tile_rows * dimensions * 2
|
| 125 |
-
)
|
| 126 |
-
pinned_holders.append(pinned_memory)
|
| 127 |
-
view = np.frombuffer(
|
| 128 |
-
pinned_memory, dtype=np.float16, count=candidate_tile_rows * dimensions
|
| 129 |
-
).reshape(candidate_tile_rows, dimensions)
|
| 130 |
-
pinned_views.append(view)
|
| 131 |
-
|
| 132 |
-
# Device candidate buffers (double-buffered).
|
| 133 |
-
candidate_buffers = [
|
| 134 |
-
cupy.empty((candidate_tile_rows, dimensions), dtype=cupy.float16),
|
| 135 |
-
cupy.empty((candidate_tile_rows, dimensions), dtype=cupy.float16),
|
| 136 |
-
]
|
| 137 |
-
|
| 138 |
-
# Pre-allocated FP32 similarity buffer reused as `out=` of every matmul.
|
| 139 |
-
similarity_buffer = cupy.empty(
|
| 140 |
-
(query_tile_rows, candidate_tile_rows), dtype=cupy.float32
|
| 141 |
-
)
|
| 142 |
-
|
| 143 |
-
# Running top-k state on device. -inf scores so the first tile populates them.
|
| 144 |
-
topk_scores = cupy.full((stripe_size, keep), -cupy.inf, dtype=cupy.float32)
|
| 145 |
-
topk_indices = cupy.full((stripe_size, keep), -1, dtype=cupy.int32)
|
| 146 |
-
|
| 147 |
-
copy_stream = cupy.cuda.Stream(non_blocking=True)
|
| 148 |
-
compute_stream = cupy.cuda.Stream(non_blocking=True)
|
| 149 |
-
copy_done = [
|
| 150 |
-
cupy.cuda.Event(disable_timing=True),
|
| 151 |
-
cupy.cuda.Event(disable_timing=True),
|
| 152 |
-
]
|
| 153 |
-
compute_done = [
|
| 154 |
-
cupy.cuda.Event(disable_timing=True),
|
| 155 |
-
cupy.cuda.Event(disable_timing=True),
|
| 156 |
-
]
|
| 157 |
-
|
| 158 |
-
candidate_offsets = list(range(0, total_vectors, candidate_tile_rows))
|
| 159 |
-
|
| 160 |
-
def stage_tile(slot: int, tile_offset: int) -> int:
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| 161 |
-
"""Stage a candidate tile: pinned scratch then async H2D into candidate_buffers[slot].
|
| 162 |
-
|
| 163 |
-
Host-side: waits for any previous H2D from this slot's pinned scratch before
|
| 164 |
-
overwriting it (otherwise the in-flight H2D could read torn data). Device-side:
|
| 165 |
-
waits for the previous compute that read this slot's device buffer.
|
| 166 |
-
"""
|
| 167 |
-
count = min(candidate_tile_rows, total_vectors - tile_offset)
|
| 168 |
-
# Pinned scratch reuse: host-side wait on the previous H2D from this slot.
|
| 169 |
-
# (Synchronize on a never-recorded event is a no-op.)
|
| 170 |
-
copy_done[slot].synchronize()
|
| 171 |
-
np.copyto(
|
| 172 |
-
pinned_views[slot][:count], embeddings[tile_offset : tile_offset + count]
|
| 173 |
-
)
|
| 174 |
-
# Device buffer reuse: don't overwrite while compute is still reading it.
|
| 175 |
-
copy_stream.wait_event(compute_done[slot])
|
| 176 |
-
candidate_buffers[slot][:count].set(
|
| 177 |
-
pinned_views[slot][:count], stream=copy_stream
|
| 178 |
-
)
|
| 179 |
-
copy_done[slot].record(copy_stream)
|
| 180 |
-
return count
|
| 181 |
-
|
| 182 |
-
# Prime both slots so the steady-state loop has tiles ready on first compute.
|
| 183 |
-
counts = [0, 0]
|
| 184 |
-
for slot in range(min(2, len(candidate_offsets))):
|
| 185 |
-
counts[slot] = stage_tile(slot, candidate_offsets[slot])
|
| 186 |
-
|
| 187 |
-
started = time.monotonic()
|
| 188 |
-
|
| 189 |
-
for tile_idx, tile_offset in enumerate(candidate_offsets):
|
| 190 |
-
slot = tile_idx % 2
|
| 191 |
-
active_count = counts[slot]
|
| 192 |
-
active_device = candidate_buffers[slot][:active_count]
|
| 193 |
-
|
| 194 |
-
# Issue compute for the current tile, waiting for its H2D to complete.
|
| 195 |
-
compute_stream.wait_event(copy_done[slot])
|
| 196 |
-
|
| 197 |
-
with compute_stream:
|
| 198 |
-
for query_start in range(0, stripe_size, query_tile_rows):
|
| 199 |
-
query_end = min(query_start + query_tile_rows, stripe_size)
|
| 200 |
-
query_count = query_end - query_start
|
| 201 |
-
similarity_view = similarity_buffer[:query_count, :active_count]
|
| 202 |
-
|
| 203 |
-
# Pre-allocated FP32 buffer reused for every tile pair (the `out=` request).
|
| 204 |
-
cupy.matmul(
|
| 205 |
-
query_stripe[query_start:query_end],
|
| 206 |
-
active_device.T,
|
| 207 |
-
out=similarity_view,
|
| 208 |
-
)
|
| 209 |
-
|
| 210 |
-
# Top-k for this tile via torch.topk (much faster than
|
| 211 |
-
# cupy.argpartition: ~150x measured at 16K x 64K f32). The DLPack
|
| 212 |
-
# bridge zero-copies the cupy buffer; outputs are still on the
|
| 213 |
-
# same device. When the final tile is shorter than `keep`,
|
| 214 |
-
# take all rows and pad with -inf sentinels.
|
| 215 |
-
if active_count >= keep:
|
| 216 |
-
similarity_torch = torch.from_dlpack(similarity_view)
|
| 217 |
-
tile_values_torch, tile_local_torch = torch.topk(
|
| 218 |
-
similarity_torch, k=keep, dim=1, largest=True, sorted=False
|
| 219 |
-
)
|
| 220 |
-
tile_top_scores = cupy.from_dlpack(tile_values_torch)
|
| 221 |
-
tile_top_indices = cupy.from_dlpack(tile_local_torch).astype(
|
| 222 |
-
cupy.int32
|
| 223 |
-
) + cupy.int32(tile_offset)
|
| 224 |
-
else:
|
| 225 |
-
pad = keep - active_count
|
| 226 |
-
sub_global = cupy.arange(
|
| 227 |
-
active_count, dtype=cupy.int32
|
| 228 |
-
) + cupy.int32(tile_offset)
|
| 229 |
-
tile_top_indices = cupy.concatenate(
|
| 230 |
-
[
|
| 231 |
-
cupy.broadcast_to(sub_global, (query_count, active_count)),
|
| 232 |
-
cupy.full((query_count, pad), -1, dtype=cupy.int32),
|
| 233 |
-
],
|
| 234 |
-
axis=1,
|
| 235 |
-
)
|
| 236 |
-
tile_top_scores = cupy.concatenate(
|
| 237 |
-
[
|
| 238 |
-
similarity_view,
|
| 239 |
-
cupy.full(
|
| 240 |
-
(query_count, pad), -cupy.inf, dtype=cupy.float32
|
| 241 |
-
),
|
| 242 |
-
],
|
| 243 |
-
axis=1,
|
| 244 |
-
)
|
| 245 |
-
|
| 246 |
-
# Merge running top-k with this tile's top-k. Combined width is
|
| 247 |
-
# 2 * keep, which is small enough that another torch.topk is the
|
| 248 |
-
# right tool here too.
|
| 249 |
-
running_indices_chunk = topk_indices[query_start:query_end]
|
| 250 |
-
running_scores_chunk = topk_scores[query_start:query_end]
|
| 251 |
-
combined_scores = cupy.concatenate(
|
| 252 |
-
[running_scores_chunk, tile_top_scores], axis=1
|
| 253 |
-
)
|
| 254 |
-
combined_indices = cupy.concatenate(
|
| 255 |
-
[running_indices_chunk, tile_top_indices], axis=1
|
| 256 |
-
)
|
| 257 |
-
combined_torch = torch.from_dlpack(combined_scores)
|
| 258 |
-
merge_values_torch, merge_pos_torch = torch.topk(
|
| 259 |
-
combined_torch, k=keep, dim=1, largest=True, sorted=False
|
| 260 |
-
)
|
| 261 |
-
merge_pos = cupy.from_dlpack(merge_pos_torch)
|
| 262 |
-
topk_scores[query_start:query_end] = cupy.from_dlpack(
|
| 263 |
-
merge_values_torch
|
| 264 |
-
)
|
| 265 |
-
topk_indices[query_start:query_end] = cupy.take_along_axis(
|
| 266 |
-
combined_indices, merge_pos, axis=1
|
| 267 |
-
)
|
| 268 |
-
|
| 269 |
-
compute_done[slot].record(compute_stream)
|
| 270 |
-
|
| 271 |
-
# Now that compute is queued, prefetch tile_idx+2 into this slot.
|
| 272 |
-
# copy_stream waits on compute_done[slot] before overwriting the device buffer,
|
| 273 |
-
# and stage_tile waits host-side on copy_done[slot] before overwriting pinned scratch.
|
| 274 |
-
prefetch_idx = tile_idx + 2
|
| 275 |
-
if prefetch_idx < len(candidate_offsets):
|
| 276 |
-
counts[slot] = stage_tile(slot, candidate_offsets[prefetch_idx])
|
| 277 |
-
|
| 278 |
-
if (tile_idx + 1) % 32 == 0 or tile_idx + 1 == len(candidate_offsets):
|
| 279 |
-
compute_stream.synchronize()
|
| 280 |
-
# Reclaim pooled blocks accumulated by intra-tile concat / take ops
|
| 281 |
-
# so pool growth doesn't drift toward the device limit.
|
| 282 |
-
cupy.get_default_memory_pool().free_all_blocks()
|
| 283 |
-
elapsed = time.monotonic() - started
|
| 284 |
-
done_candidates = (tile_idx + 1) * candidate_tile_rows
|
| 285 |
-
millions_per_second = done_candidates / max(elapsed, 1e-3) / 1e6
|
| 286 |
-
print(
|
| 287 |
-
f"[gpu{gpu_index}] tile {tile_idx + 1}/{len(candidate_offsets)} "
|
| 288 |
-
f"elapsed {elapsed:.0f}s ({millions_per_second:.2f}M cand/s)",
|
| 289 |
-
flush=True,
|
| 290 |
-
)
|
| 291 |
-
|
| 292 |
-
compute_stream.synchronize()
|
| 293 |
-
|
| 294 |
-
# Sort each row by descending score, then drop the self-match in a single shift.
|
| 295 |
-
sorted_order = cupy.argsort(-topk_scores, axis=1)
|
| 296 |
-
sorted_scores = cupy.take_along_axis(topk_scores, sorted_order, axis=1)
|
| 297 |
-
sorted_indices = cupy.take_along_axis(topk_indices, sorted_order, axis=1)
|
| 298 |
-
|
| 299 |
-
query_global_ids = cupy.arange(stripe_start, stripe_end, dtype=cupy.int32).reshape(
|
| 300 |
-
-1, 1
|
| 301 |
-
)
|
| 302 |
-
is_self = sorted_indices == query_global_ids
|
| 303 |
-
has_self = cupy.any(is_self, axis=1, keepdims=True)
|
| 304 |
-
self_pos = cupy.argmax(is_self.astype(cupy.int32), axis=1, keepdims=True)
|
| 305 |
-
|
| 306 |
-
output_columns = cupy.broadcast_to(
|
| 307 |
-
cupy.arange(num_neighbors, dtype=cupy.int32), (stripe_size, num_neighbors)
|
| 308 |
)
|
| 309 |
-
shift_mask = (output_columns >= self_pos) & has_self
|
| 310 |
-
source_columns = output_columns + shift_mask.astype(cupy.int32)
|
| 311 |
-
final_scores = cupy.take_along_axis(sorted_scores, source_columns, axis=1)
|
| 312 |
-
final_indices = cupy.take_along_axis(sorted_indices, source_columns, axis=1)
|
| 313 |
-
|
| 314 |
scratch_dir.mkdir(parents=True, exist_ok=True)
|
| 315 |
-
|
| 316 |
-
|
| 317 |
-
|
| 318 |
-
write_bin(scores_path, cupy.asnumpy(final_scores), dtype="f32")
|
| 319 |
|
| 320 |
-
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|
|
|
| 321 |
print(
|
| 322 |
-
f"[gpu{gpu_index}]
|
| 323 |
-
f"
|
| 324 |
flush=True,
|
| 325 |
)
|
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|
| 326 |
|
| 327 |
|
| 328 |
def gather_outputs(
|
|
@@ -331,17 +178,15 @@ def gather_outputs(
|
|
| 331 |
suffix: str,
|
| 332 |
shards: list[CollectionShard],
|
| 333 |
num_gpus: int,
|
| 334 |
-
|
| 335 |
num_neighbors: int,
|
| 336 |
) -> None:
|
| 337 |
-
"""Slice per-stripe scratch files into per-shard
|
| 338 |
-
|
| 339 |
-
|
| 340 |
-
|
| 341 |
-
a stripe boundary, so we may pull from up to two stripes per shard.
|
| 342 |
"""
|
| 343 |
-
|
| 344 |
-
bytes_per_row_scores = num_neighbors * 4
|
| 345 |
indices_files = [
|
| 346 |
open(scratch_dir / f"stripe_{gpu_index:02d}.ibin", "rb")
|
| 347 |
for gpu_index in range(num_gpus)
|
|
@@ -351,9 +196,8 @@ def gather_outputs(
|
|
| 351 |
for gpu_index in range(num_gpus)
|
| 352 |
]
|
| 353 |
try:
|
| 354 |
-
# Stripe boundary table (cumulative row counts).
|
| 355 |
stripe_starts = [
|
| 356 |
-
(
|
| 357 |
]
|
| 358 |
for shard in shards:
|
| 359 |
wiki_dir = model_root / shard.wikiname
|
|
@@ -369,32 +213,21 @@ def gather_outputs(
|
|
| 369 |
cursor = shard.row_offset
|
| 370 |
shard_end = shard.row_offset + shard.row_count
|
| 371 |
while cursor < shard_end:
|
| 372 |
-
# Find which stripe owns `cursor`.
|
| 373 |
stripe_index = next(
|
| 374 |
gpu_index
|
| 375 |
for gpu_index in range(num_gpus)
|
| 376 |
-
if stripe_starts[gpu_index]
|
| 377 |
-
<= cursor
|
| 378 |
-
< stripe_starts[gpu_index + 1]
|
| 379 |
)
|
| 380 |
chunk_end = min(shard_end, stripe_starts[stripe_index + 1])
|
| 381 |
chunk_rows = chunk_end - cursor
|
| 382 |
offset_in_stripe = cursor - stripe_starts[stripe_index]
|
| 383 |
-
indices_files[stripe_index].seek(
|
| 384 |
-
|
| 385 |
-
)
|
| 386 |
-
scores_files[stripe_index].seek(
|
| 387 |
-
8 + offset_in_stripe * bytes_per_row_scores
|
| 388 |
-
)
|
| 389 |
out_indices.write(
|
| 390 |
-
indices_files[stripe_index].read(
|
| 391 |
-
chunk_rows * bytes_per_row_indices
|
| 392 |
-
)
|
| 393 |
)
|
| 394 |
out_scores.write(
|
| 395 |
-
scores_files[stripe_index].read(
|
| 396 |
-
chunk_rows * bytes_per_row_scores
|
| 397 |
-
)
|
| 398 |
)
|
| 399 |
cursor = chunk_end
|
| 400 |
finally:
|
|
@@ -402,41 +235,7 @@ def gather_outputs(
|
|
| 402 |
handle.close()
|
| 403 |
|
| 404 |
|
| 405 |
-
def
|
| 406 |
-
parser = argparse.ArgumentParser()
|
| 407 |
-
parser.add_argument("--output", default="/home/ubuntu/wikiverse-data/embeddings")
|
| 408 |
-
parser.add_argument(
|
| 409 |
-
"--model-subdir",
|
| 410 |
-
default="qwen3-embedding-0.6b",
|
| 411 |
-
help="collection lives at {output}/{model-subdir}/",
|
| 412 |
-
)
|
| 413 |
-
parser.add_argument(
|
| 414 |
-
"--dimensions",
|
| 415 |
-
type=int,
|
| 416 |
-
default=1024,
|
| 417 |
-
help="embedding dimensionality (1024 Qwen3/arctic, 768 nomic, 4096 e5-mistral)",
|
| 418 |
-
)
|
| 419 |
-
parser.add_argument("--output-suffix", default="body", choices=["body", "title"])
|
| 420 |
-
parser.add_argument("--num-neighbors", type=int, default=100)
|
| 421 |
-
parser.add_argument("--num-gpus", type=int, default=8)
|
| 422 |
-
parser.add_argument(
|
| 423 |
-
"--query-tile-rows",
|
| 424 |
-
type=int,
|
| 425 |
-
default=16384,
|
| 426 |
-
help="rows per query chunk inside the resident stripe",
|
| 427 |
-
)
|
| 428 |
-
parser.add_argument(
|
| 429 |
-
"--candidate-tile-rows",
|
| 430 |
-
type=int,
|
| 431 |
-
default=131072,
|
| 432 |
-
help="rows per candidate tile streamed past the query stripe",
|
| 433 |
-
)
|
| 434 |
-
args = parser.parse_args()
|
| 435 |
-
|
| 436 |
-
model_root = Path(args.output) / args.model_subdir
|
| 437 |
-
if not model_root.is_dir():
|
| 438 |
-
raise SystemExit(f"no collection at {model_root}")
|
| 439 |
-
|
| 440 |
shards = discover_collection(model_root, args.output_suffix)
|
| 441 |
if not shards:
|
| 442 |
raise SystemExit(f"no .{args.output_suffix}.f16bin files under {model_root}")
|
|
@@ -448,10 +247,16 @@ def main() -> None:
|
|
| 448 |
flush=True,
|
| 449 |
)
|
| 450 |
|
| 451 |
-
|
| 452 |
-
|
| 453 |
-
)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 454 |
|
|
|
|
| 455 |
scratch_dir = model_root / f"_ground_truth_scratch_{args.output_suffix}"
|
| 456 |
scratch_dir.mkdir(parents=True, exist_ok=True)
|
| 457 |
|
|
@@ -459,12 +264,11 @@ def main() -> None:
|
|
| 459 |
workers: list[mp.Process] = []
|
| 460 |
for gpu_index in range(args.num_gpus):
|
| 461 |
process = mp_context.Process(
|
| 462 |
-
target=
|
| 463 |
args=(
|
| 464 |
gpu_index,
|
| 465 |
args.num_gpus,
|
| 466 |
embeddings,
|
| 467 |
-
args.dimensions,
|
| 468 |
args.num_neighbors,
|
| 469 |
args.query_tile_rows,
|
| 470 |
args.candidate_tile_rows,
|
|
@@ -480,8 +284,7 @@ def main() -> None:
|
|
| 480 |
if process.exitcode != 0:
|
| 481 |
failed = True
|
| 482 |
print(
|
| 483 |
-
f"worker pid {process.pid} exited
|
| 484 |
-
flush=True,
|
| 485 |
)
|
| 486 |
if failed:
|
| 487 |
raise SystemExit("one or more GPU workers failed")
|
|
@@ -497,15 +300,137 @@ def main() -> None:
|
|
| 497 |
)
|
| 498 |
print(
|
| 499 |
f"wrote {len(shards)} per-shard "
|
| 500 |
-
f"`.{args.output_suffix}.ground_truth.ibin`
|
| 501 |
-
f"files under {model_root}",
|
| 502 |
flush=True,
|
| 503 |
)
|
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| 504 |
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|
| 505 |
for path in scratch_dir.iterdir():
|
| 506 |
path.unlink()
|
| 507 |
scratch_dir.rmdir()
|
| 508 |
|
| 509 |
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|
| 510 |
if __name__ == "__main__":
|
| 511 |
main()
|
|
|
|
| 1 |
"""Compute exact global k-NN ground truth for an embedding collection.
|
| 2 |
|
| 3 |
+
Two modes share the same per-stripe partition + per-shard output pipeline:
|
| 4 |
+
|
| 5 |
+
--mode dense (default)
|
| 6 |
+
Cosine top-k over a `(N, dim)` FP16 corpus. Used for the
|
| 7 |
+
article-level dense models (qwen3-embedding-0.6b,
|
| 8 |
+
snowflake-arctic-embed-l-v2.0, nomic-embed-text-v1.5, ...).
|
| 9 |
+
|
| 10 |
+
--mode maxsim
|
| 11 |
+
ColBERT-style late-interaction MaxSim top-k over a
|
| 12 |
+
`(T_total, dim)` token bank + `(N+1,)` section offsets. Used for
|
| 13 |
+
the section-level multi-vector models (gte-moderncolbert-v1).
|
| 14 |
+
|
| 15 |
+
Both modes write per-shard `{wiki}/{stem}.{suffix}.ground_truth.{ibin,fbin}`
|
| 16 |
+
files in canonical shard-walk order. The neighbor IDs in the `.ibin` are
|
| 17 |
+
global row IDs (article-id space for dense, section-id space for MaxSim).
|
| 18 |
|
| 19 |
Usage:
|
| 20 |
+
python ground_truth.py --mode dense \
|
| 21 |
+
--output /path/to/embeddings --model-subdir qwen3-embedding-0.6b \
|
| 22 |
+
--num-gpus 8
|
| 23 |
+
|
| 24 |
+
python ground_truth.py --mode maxsim \
|
| 25 |
+
--output /path/to/embeddings --model-subdir gte-moderncolbert-v1 \
|
| 26 |
+
--num-gpus 8
|
| 27 |
"""
|
| 28 |
|
| 29 |
from __future__ import annotations
|
|
|
|
| 32 |
import multiprocessing as mp
|
| 33 |
import os
|
| 34 |
import struct
|
| 35 |
+
import sys
|
| 36 |
import time
|
| 37 |
from pathlib import Path
|
| 38 |
|
| 39 |
import numpy as np
|
| 40 |
|
| 41 |
+
REPO_ROOT = Path(__file__).resolve().parent
|
| 42 |
+
sys.path.insert(0, str(REPO_ROOT))
|
| 43 |
+
|
| 44 |
+
from retrievers import ( # noqa: E402
|
| 45 |
+
_load_maxsim_corpus_to_host,
|
| 46 |
+
gt_stripe_dense,
|
| 47 |
+
gt_stripe_maxsim,
|
| 48 |
+
)
|
| 49 |
+
from usearchwiki import ( # noqa: E402
|
| 50 |
CollectionShard,
|
| 51 |
discover_collection,
|
| 52 |
resolve_lfs_pointer,
|
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|
| 54 |
)
|
| 55 |
|
| 56 |
|
| 57 |
+
def load_dense_collection(
|
| 58 |
model_root: Path,
|
| 59 |
suffix: str,
|
| 60 |
dimensions: int,
|
| 61 |
shards: list[CollectionShard],
|
| 62 |
) -> np.ndarray:
|
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|
| 63 |
total_vectors = sum(shard.row_count for shard in shards)
|
| 64 |
embeddings = np.empty((total_vectors, dimensions), dtype=np.float16)
|
| 65 |
started = time.monotonic()
|
|
|
|
| 84 |
flush=True,
|
| 85 |
)
|
| 86 |
|
| 87 |
+
# Sanitize: a handful of rows in some collections contain stray NaN/Inf
|
| 88 |
+
# (the embedder emitted noise for empty/degenerate articles). One NaN row
|
| 89 |
+
# poisons every query's top-k via NaN-tainted similarities.
|
|
|
|
| 90 |
started = time.monotonic()
|
| 91 |
+
bad_rows = 0
|
| 92 |
+
for chunk_start in range(0, total_vectors, 1_000_000):
|
| 93 |
+
chunk_end = min(chunk_start + 1_000_000, total_vectors)
|
|
|
|
| 94 |
chunk = embeddings[chunk_start:chunk_end]
|
| 95 |
bad_mask = ~np.isfinite(chunk).all(axis=1)
|
| 96 |
if bad_mask.any():
|
| 97 |
+
bad_rows += int(bad_mask.sum())
|
|
|
|
| 98 |
chunk[bad_mask] = 0
|
| 99 |
elapsed = time.monotonic() - started
|
| 100 |
print(
|
| 101 |
+
f"sanitized {bad_rows} non-finite rows -> zero vectors in {elapsed:.1f}s",
|
| 102 |
flush=True,
|
| 103 |
)
|
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|
| 104 |
return embeddings
|
| 105 |
|
| 106 |
|
| 107 |
+
def dense_worker(
|
| 108 |
gpu_index: int,
|
| 109 |
num_gpus: int,
|
| 110 |
embeddings: np.ndarray,
|
|
|
|
| 111 |
num_neighbors: int,
|
| 112 |
query_tile_rows: int,
|
| 113 |
candidate_tile_rows: int,
|
| 114 |
scratch_dir: Path,
|
| 115 |
) -> None:
|
|
|
|
| 116 |
os.environ["CUDA_VISIBLE_DEVICES"] = str(gpu_index)
|
|
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|
| 117 |
total_vectors = embeddings.shape[0]
|
| 118 |
stripe_start = (total_vectors * gpu_index) // num_gpus
|
| 119 |
stripe_end = (total_vectors * (gpu_index + 1)) // num_gpus
|
|
|
|
|
|
|
|
|
|
| 120 |
print(
|
| 121 |
+
f"[gpu{gpu_index} dense] queries [{stripe_start:,}, {stripe_end:,}) "
|
| 122 |
+
f"vs corpus {total_vectors:,}",
|
| 123 |
flush=True,
|
| 124 |
)
|
| 125 |
+
indices, scores = gt_stripe_dense(
|
| 126 |
+
embeddings_host=embeddings,
|
| 127 |
+
stripe_start=stripe_start,
|
| 128 |
+
stripe_end=stripe_end,
|
| 129 |
+
num_neighbors=num_neighbors,
|
| 130 |
+
query_tile_rows=query_tile_rows,
|
| 131 |
+
candidate_tile_rows=candidate_tile_rows,
|
| 132 |
+
log_prefix=f"[gpu{gpu_index} dense] ",
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|
| 133 |
)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 134 |
scratch_dir.mkdir(parents=True, exist_ok=True)
|
| 135 |
+
write_bin(scratch_dir / f"stripe_{gpu_index:02d}.ibin", indices, dtype="i32")
|
| 136 |
+
write_bin(scratch_dir / f"stripe_{gpu_index:02d}.fbin", scores, dtype="f32")
|
| 137 |
+
print(f"[gpu{gpu_index} dense] DONE -> stripe_{gpu_index:02d}.{{ibin,fbin}}", flush=True)
|
|
|
|
| 138 |
|
| 139 |
+
|
| 140 |
+
def maxsim_worker(
|
| 141 |
+
gpu_index: int,
|
| 142 |
+
num_gpus: int,
|
| 143 |
+
token_bank: np.ndarray,
|
| 144 |
+
section_offsets: np.ndarray,
|
| 145 |
+
num_neighbors: int,
|
| 146 |
+
query_tile_sections: int,
|
| 147 |
+
candidate_tile_sections: int,
|
| 148 |
+
scratch_dir: Path,
|
| 149 |
+
) -> None:
|
| 150 |
+
os.environ["CUDA_VISIBLE_DEVICES"] = str(gpu_index)
|
| 151 |
+
total_sections = section_offsets.shape[0] - 1
|
| 152 |
+
stripe_start = (total_sections * gpu_index) // num_gpus
|
| 153 |
+
stripe_end = (total_sections * (gpu_index + 1)) // num_gpus
|
| 154 |
print(
|
| 155 |
+
f"[gpu{gpu_index} maxsim] queries [{stripe_start:,}, {stripe_end:,}) "
|
| 156 |
+
f"vs corpus {total_sections:,} sections, {token_bank.shape[0]:,} tokens",
|
| 157 |
flush=True,
|
| 158 |
)
|
| 159 |
+
indices, scores = gt_stripe_maxsim(
|
| 160 |
+
token_bank_host=token_bank,
|
| 161 |
+
section_offsets_host=section_offsets,
|
| 162 |
+
stripe_start_section=stripe_start,
|
| 163 |
+
stripe_end_section=stripe_end,
|
| 164 |
+
num_neighbors=num_neighbors,
|
| 165 |
+
query_tile_sections=query_tile_sections,
|
| 166 |
+
candidate_tile_sections=candidate_tile_sections,
|
| 167 |
+
log_prefix=f"[gpu{gpu_index} maxsim] ",
|
| 168 |
+
)
|
| 169 |
+
scratch_dir.mkdir(parents=True, exist_ok=True)
|
| 170 |
+
write_bin(scratch_dir / f"stripe_{gpu_index:02d}.ibin", indices, dtype="i32")
|
| 171 |
+
write_bin(scratch_dir / f"stripe_{gpu_index:02d}.fbin", scores, dtype="f32")
|
| 172 |
+
print(f"[gpu{gpu_index} maxsim] DONE -> stripe_{gpu_index:02d}.{{ibin,fbin}}", flush=True)
|
| 173 |
|
| 174 |
|
| 175 |
def gather_outputs(
|
|
|
|
| 178 |
suffix: str,
|
| 179 |
shards: list[CollectionShard],
|
| 180 |
num_gpus: int,
|
| 181 |
+
total_rows: int,
|
| 182 |
num_neighbors: int,
|
| 183 |
) -> None:
|
| 184 |
+
"""Slice per-stripe scratch files into per-shard
|
| 185 |
+
`.{suffix}.ground_truth.{ibin,fbin}` files. Each `CollectionShard.row_count`
|
| 186 |
+
is in whatever unit the per-stripe rows were written (articles for dense,
|
| 187 |
+
sections for maxsim) — `gather_outputs` is unit-agnostic.
|
|
|
|
| 188 |
"""
|
| 189 |
+
bytes_per_row = num_neighbors * 4
|
|
|
|
| 190 |
indices_files = [
|
| 191 |
open(scratch_dir / f"stripe_{gpu_index:02d}.ibin", "rb")
|
| 192 |
for gpu_index in range(num_gpus)
|
|
|
|
| 196 |
for gpu_index in range(num_gpus)
|
| 197 |
]
|
| 198 |
try:
|
|
|
|
| 199 |
stripe_starts = [
|
| 200 |
+
(total_rows * gpu_index) // num_gpus for gpu_index in range(num_gpus + 1)
|
| 201 |
]
|
| 202 |
for shard in shards:
|
| 203 |
wiki_dir = model_root / shard.wikiname
|
|
|
|
| 213 |
cursor = shard.row_offset
|
| 214 |
shard_end = shard.row_offset + shard.row_count
|
| 215 |
while cursor < shard_end:
|
|
|
|
| 216 |
stripe_index = next(
|
| 217 |
gpu_index
|
| 218 |
for gpu_index in range(num_gpus)
|
| 219 |
+
if stripe_starts[gpu_index] <= cursor < stripe_starts[gpu_index + 1]
|
|
|
|
|
|
|
| 220 |
)
|
| 221 |
chunk_end = min(shard_end, stripe_starts[stripe_index + 1])
|
| 222 |
chunk_rows = chunk_end - cursor
|
| 223 |
offset_in_stripe = cursor - stripe_starts[stripe_index]
|
| 224 |
+
indices_files[stripe_index].seek(8 + offset_in_stripe * bytes_per_row)
|
| 225 |
+
scores_files[stripe_index].seek(8 + offset_in_stripe * bytes_per_row)
|
|
|
|
|
|
|
|
|
|
|
|
|
| 226 |
out_indices.write(
|
| 227 |
+
indices_files[stripe_index].read(chunk_rows * bytes_per_row)
|
|
|
|
|
|
|
| 228 |
)
|
| 229 |
out_scores.write(
|
| 230 |
+
scores_files[stripe_index].read(chunk_rows * bytes_per_row)
|
|
|
|
|
|
|
| 231 |
)
|
| 232 |
cursor = chunk_end
|
| 233 |
finally:
|
|
|
|
| 235 |
handle.close()
|
| 236 |
|
| 237 |
|
| 238 |
+
def run_dense(args, model_root: Path) -> None:
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
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|
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|
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|
|
|
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|
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|
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|
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|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 239 |
shards = discover_collection(model_root, args.output_suffix)
|
| 240 |
if not shards:
|
| 241 |
raise SystemExit(f"no .{args.output_suffix}.f16bin files under {model_root}")
|
|
|
|
| 247 |
flush=True,
|
| 248 |
)
|
| 249 |
|
| 250 |
+
# Read dimensions from the first shard's header.
|
| 251 |
+
first_blob = resolve_lfs_pointer(shards[0].path)
|
| 252 |
+
with open(first_blob, "rb") as file:
|
| 253 |
+
_, dimensions = struct.unpack("<II", file.read(8))
|
| 254 |
+
if args.dimensions and args.dimensions != dimensions:
|
| 255 |
+
raise SystemExit(
|
| 256 |
+
f"--dimensions {args.dimensions} != on-disk {dimensions} for {model_root}"
|
| 257 |
+
)
|
| 258 |
|
| 259 |
+
embeddings = load_dense_collection(model_root, args.output_suffix, dimensions, shards)
|
| 260 |
scratch_dir = model_root / f"_ground_truth_scratch_{args.output_suffix}"
|
| 261 |
scratch_dir.mkdir(parents=True, exist_ok=True)
|
| 262 |
|
|
|
|
| 264 |
workers: list[mp.Process] = []
|
| 265 |
for gpu_index in range(args.num_gpus):
|
| 266 |
process = mp_context.Process(
|
| 267 |
+
target=dense_worker,
|
| 268 |
args=(
|
| 269 |
gpu_index,
|
| 270 |
args.num_gpus,
|
| 271 |
embeddings,
|
|
|
|
| 272 |
args.num_neighbors,
|
| 273 |
args.query_tile_rows,
|
| 274 |
args.candidate_tile_rows,
|
|
|
|
| 284 |
if process.exitcode != 0:
|
| 285 |
failed = True
|
| 286 |
print(
|
| 287 |
+
f"worker pid {process.pid} exited code {process.exitcode}", flush=True
|
|
|
|
| 288 |
)
|
| 289 |
if failed:
|
| 290 |
raise SystemExit("one or more GPU workers failed")
|
|
|
|
| 300 |
)
|
| 301 |
print(
|
| 302 |
f"wrote {len(shards)} per-shard "
|
| 303 |
+
f"`.{args.output_suffix}.ground_truth.{{ibin,fbin}}` files under {model_root}",
|
|
|
|
| 304 |
flush=True,
|
| 305 |
)
|
| 306 |
+
for path in scratch_dir.iterdir():
|
| 307 |
+
path.unlink()
|
| 308 |
+
scratch_dir.rmdir()
|
| 309 |
|
| 310 |
+
|
| 311 |
+
def run_maxsim(args, model_root: Path) -> None:
|
| 312 |
+
started = time.monotonic()
|
| 313 |
+
print(f"loading multi-vector corpus under {model_root} ...", flush=True)
|
| 314 |
+
token_bank, section_offsets, shards, dimensions = _load_maxsim_corpus_to_host(
|
| 315 |
+
model_root, args.output_suffix
|
| 316 |
+
)
|
| 317 |
+
elapsed = time.monotonic() - started
|
| 318 |
+
total_sections = section_offsets.shape[0] - 1
|
| 319 |
+
total_tokens = token_bank.shape[0]
|
| 320 |
+
print(
|
| 321 |
+
f"loaded {total_sections:,} sections, {total_tokens:,} tokens "
|
| 322 |
+
f"({token_bank.nbytes/1e9:.1f} GB) across {len(shards)} shards "
|
| 323 |
+
f"in {elapsed:.1f}s; dim={dimensions}",
|
| 324 |
+
flush=True,
|
| 325 |
+
)
|
| 326 |
+
|
| 327 |
+
scratch_dir = model_root / f"_ground_truth_scratch_{args.output_suffix}"
|
| 328 |
+
scratch_dir.mkdir(parents=True, exist_ok=True)
|
| 329 |
+
|
| 330 |
+
mp_context = mp.get_context("fork")
|
| 331 |
+
workers: list[mp.Process] = []
|
| 332 |
+
for gpu_index in range(args.num_gpus):
|
| 333 |
+
process = mp_context.Process(
|
| 334 |
+
target=maxsim_worker,
|
| 335 |
+
args=(
|
| 336 |
+
gpu_index,
|
| 337 |
+
args.num_gpus,
|
| 338 |
+
token_bank,
|
| 339 |
+
section_offsets,
|
| 340 |
+
args.num_neighbors,
|
| 341 |
+
args.query_tile_sections,
|
| 342 |
+
args.candidate_tile_sections,
|
| 343 |
+
scratch_dir,
|
| 344 |
+
),
|
| 345 |
+
)
|
| 346 |
+
process.start()
|
| 347 |
+
workers.append(process)
|
| 348 |
+
|
| 349 |
+
failed = False
|
| 350 |
+
for process in workers:
|
| 351 |
+
process.join()
|
| 352 |
+
if process.exitcode != 0:
|
| 353 |
+
failed = True
|
| 354 |
+
print(
|
| 355 |
+
f"worker pid {process.pid} exited code {process.exitcode}", flush=True
|
| 356 |
+
)
|
| 357 |
+
if failed:
|
| 358 |
+
raise SystemExit("one or more GPU workers failed")
|
| 359 |
+
|
| 360 |
+
gather_outputs(
|
| 361 |
+
scratch_dir,
|
| 362 |
+
model_root,
|
| 363 |
+
args.output_suffix,
|
| 364 |
+
shards,
|
| 365 |
+
args.num_gpus,
|
| 366 |
+
total_sections,
|
| 367 |
+
args.num_neighbors,
|
| 368 |
+
)
|
| 369 |
+
print(
|
| 370 |
+
f"wrote {len(shards)} per-shard "
|
| 371 |
+
f"`.{args.output_suffix}.ground_truth.{{ibin,fbin}}` files under {model_root}",
|
| 372 |
+
flush=True,
|
| 373 |
+
)
|
| 374 |
for path in scratch_dir.iterdir():
|
| 375 |
path.unlink()
|
| 376 |
scratch_dir.rmdir()
|
| 377 |
|
| 378 |
|
| 379 |
+
def main() -> None:
|
| 380 |
+
parser = argparse.ArgumentParser()
|
| 381 |
+
parser.add_argument(
|
| 382 |
+
"--mode",
|
| 383 |
+
default="dense",
|
| 384 |
+
choices=["dense", "maxsim"],
|
| 385 |
+
help="dense = single vector per row (cosine); maxsim = multi-vector per "
|
| 386 |
+
"section (ColBERT late interaction)",
|
| 387 |
+
)
|
| 388 |
+
parser.add_argument("--output", default="/home/ubuntu/USearchWiki")
|
| 389 |
+
parser.add_argument("--model-subdir", required=True)
|
| 390 |
+
parser.add_argument(
|
| 391 |
+
"--dimensions",
|
| 392 |
+
type=int,
|
| 393 |
+
default=0,
|
| 394 |
+
help="optional sanity check; if 0, read from first shard's header (dense only)",
|
| 395 |
+
)
|
| 396 |
+
parser.add_argument("--output-suffix", default="body", choices=["body", "title"])
|
| 397 |
+
parser.add_argument("--num-neighbors", type=int, default=100)
|
| 398 |
+
parser.add_argument("--num-gpus", type=int, default=8)
|
| 399 |
+
parser.add_argument(
|
| 400 |
+
"--query-tile-rows",
|
| 401 |
+
type=int,
|
| 402 |
+
default=16384,
|
| 403 |
+
help="dense: rows per query chunk inside the resident stripe",
|
| 404 |
+
)
|
| 405 |
+
parser.add_argument(
|
| 406 |
+
"--candidate-tile-rows",
|
| 407 |
+
type=int,
|
| 408 |
+
default=131072,
|
| 409 |
+
help="dense: rows per candidate tile streamed past the query stripe",
|
| 410 |
+
)
|
| 411 |
+
parser.add_argument(
|
| 412 |
+
"--query-tile-sections",
|
| 413 |
+
type=int,
|
| 414 |
+
default=256,
|
| 415 |
+
help="maxsim: sections per query micro-batch",
|
| 416 |
+
)
|
| 417 |
+
parser.add_argument(
|
| 418 |
+
"--candidate-tile-sections",
|
| 419 |
+
type=int,
|
| 420 |
+
default=65536,
|
| 421 |
+
help="maxsim: sections per streamed candidate tile",
|
| 422 |
+
)
|
| 423 |
+
args = parser.parse_args()
|
| 424 |
+
|
| 425 |
+
model_root = Path(args.output) / args.model_subdir
|
| 426 |
+
if not model_root.is_dir():
|
| 427 |
+
raise SystemExit(f"no collection at {model_root}")
|
| 428 |
+
|
| 429 |
+
if args.mode == "dense":
|
| 430 |
+
run_dense(args, model_root)
|
| 431 |
+
else:
|
| 432 |
+
run_maxsim(args, model_root)
|
| 433 |
+
|
| 434 |
+
|
| 435 |
if __name__ == "__main__":
|
| 436 |
main()
|
|
@@ -0,0 +1,845 @@
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|
| 1 |
+
"""Brute-force retrievers + shared GPU kernels.
|
| 2 |
+
|
| 3 |
+
Two retriever families share one streaming-top-k template:
|
| 4 |
+
- DenseRetriever: cosine top-k over an `(N, dim)` FP16 corpus.
|
| 5 |
+
- MaxSimRetriever: ColBERT-style late interaction over a multi-vector
|
| 6 |
+
corpus (`(T_total, dim)` token bank + `(N+1,)` section offsets).
|
| 7 |
+
|
| 8 |
+
Both compute an `(Q, M)` score matrix per candidate tile, merge it into the
|
| 9 |
+
running top-k, and repeat. They differ only in the per-tile score kernel:
|
| 10 |
+
|
| 11 |
+
- Dense: a single FP16 matmul into a pre-allocated FP32 `out=` buffer.
|
| 12 |
+
- MaxSim: matmul + segment-max along ragged doc-token offsets +
|
| 13 |
+
segment-sum along ragged query-token offsets, via two small RawKernels.
|
| 14 |
+
|
| 15 |
+
The same streaming loop is exposed two ways:
|
| 16 |
+
- `gt_stripe_*` functions: per-GPU stripe workers used by `ground_truth.py`
|
| 17 |
+
for the all-vs-all corpus sweep (host-resident corpus, double-buffered
|
| 18 |
+
H2D for candidate tiles, query stripe resident on-device).
|
| 19 |
+
- `DenseRetriever` / `MaxSimRetriever` classes: consumer-facing search,
|
| 20 |
+
corpus loaded once at construction and held resident on a single GPU.
|
| 21 |
+
`search()` becomes a single `gt_stripe_*` call with the resident corpus
|
| 22 |
+
used as the candidate stream.
|
| 23 |
+
"""
|
| 24 |
+
|
| 25 |
+
from __future__ import annotations
|
| 26 |
+
|
| 27 |
+
import struct
|
| 28 |
+
import time
|
| 29 |
+
from pathlib import Path
|
| 30 |
+
|
| 31 |
+
import numpy as np
|
| 32 |
+
|
| 33 |
+
from usearchwiki import (
|
| 34 |
+
CollectionShard,
|
| 35 |
+
discover_collection,
|
| 36 |
+
resolve_lfs_pointer,
|
| 37 |
+
)
|
| 38 |
+
|
| 39 |
+
|
| 40 |
+
# Two ragged-segment reductions for MaxSim. Each thread handles one (row,
|
| 41 |
+
# segment) cell; the inner loop is bounded by the segment width (median 3,
|
| 42 |
+
# p99 ~16 for FineWiki sections, so a single warp easily covers the worst
|
| 43 |
+
# rows without divergence pain).
|
| 44 |
+
_SEGMENT_MAX_SRC = r"""
|
| 45 |
+
extern "C" __global__ void segment_max_2d(
|
| 46 |
+
const float* __restrict__ values,
|
| 47 |
+
const int* __restrict__ offsets,
|
| 48 |
+
float* __restrict__ out,
|
| 49 |
+
int rows, int n_segments, int row_stride, int out_stride
|
| 50 |
+
) {
|
| 51 |
+
int seg = blockIdx.x * blockDim.x + threadIdx.x;
|
| 52 |
+
int row = blockIdx.y * blockDim.y + threadIdx.y;
|
| 53 |
+
if (row >= rows || seg >= n_segments) return;
|
| 54 |
+
int start = offsets[seg];
|
| 55 |
+
int end = offsets[seg + 1];
|
| 56 |
+
const float* row_ptr = values + row * row_stride;
|
| 57 |
+
float best = -3.4e38f;
|
| 58 |
+
for (int t = start; t < end; ++t) {
|
| 59 |
+
float v = row_ptr[t];
|
| 60 |
+
if (v > best) best = v;
|
| 61 |
+
}
|
| 62 |
+
out[row * out_stride + seg] = best;
|
| 63 |
+
}
|
| 64 |
+
"""
|
| 65 |
+
|
| 66 |
+
_SEGMENT_SUM_SRC = r"""
|
| 67 |
+
extern "C" __global__ void segment_sum_2d(
|
| 68 |
+
const float* __restrict__ values,
|
| 69 |
+
const int* __restrict__ offsets,
|
| 70 |
+
float* __restrict__ out,
|
| 71 |
+
int n_segments, int n_cols, int row_stride, int out_stride
|
| 72 |
+
) {
|
| 73 |
+
int col = blockIdx.x * blockDim.x + threadIdx.x;
|
| 74 |
+
int seg = blockIdx.y * blockDim.y + threadIdx.y;
|
| 75 |
+
if (seg >= n_segments || col >= n_cols) return;
|
| 76 |
+
int start = offsets[seg];
|
| 77 |
+
int end = offsets[seg + 1];
|
| 78 |
+
float total = 0.0f;
|
| 79 |
+
for (int t = start; t < end; ++t) {
|
| 80 |
+
total += values[t * row_stride + col];
|
| 81 |
+
}
|
| 82 |
+
out[seg * out_stride + col] = total;
|
| 83 |
+
}
|
| 84 |
+
"""
|
| 85 |
+
|
| 86 |
+
_SEGMENT_MAX_KERNEL = None
|
| 87 |
+
_SEGMENT_SUM_KERNEL = None
|
| 88 |
+
|
| 89 |
+
|
| 90 |
+
def _segment_kernels():
|
| 91 |
+
global _SEGMENT_MAX_KERNEL, _SEGMENT_SUM_KERNEL
|
| 92 |
+
if _SEGMENT_MAX_KERNEL is None:
|
| 93 |
+
import cupy
|
| 94 |
+
|
| 95 |
+
_SEGMENT_MAX_KERNEL = cupy.RawKernel(_SEGMENT_MAX_SRC, "segment_max_2d")
|
| 96 |
+
_SEGMENT_SUM_KERNEL = cupy.RawKernel(_SEGMENT_SUM_SRC, "segment_sum_2d")
|
| 97 |
+
return _SEGMENT_MAX_KERNEL, _SEGMENT_SUM_KERNEL
|
| 98 |
+
|
| 99 |
+
|
| 100 |
+
def _topk_merge(
|
| 101 |
+
running_scores,
|
| 102 |
+
running_indices,
|
| 103 |
+
tile_scores,
|
| 104 |
+
tile_indices,
|
| 105 |
+
keep,
|
| 106 |
+
):
|
| 107 |
+
"""Merge a (rows, keep) running top-k with a (rows, *) tile top-k. Returns
|
| 108 |
+
the new top-k. `tile_scores` / `tile_indices` may already be (rows, keep)
|
| 109 |
+
(precomputed via `torch.topk` on the full tile-similarity row) or wider.
|
| 110 |
+
"""
|
| 111 |
+
import cupy
|
| 112 |
+
import torch
|
| 113 |
+
|
| 114 |
+
combined_scores = cupy.concatenate([running_scores, tile_scores], axis=1)
|
| 115 |
+
combined_indices = cupy.concatenate([running_indices, tile_indices], axis=1)
|
| 116 |
+
combined_torch = torch.from_dlpack(combined_scores)
|
| 117 |
+
merge_values, merge_pos = torch.topk(
|
| 118 |
+
combined_torch, k=keep, dim=1, largest=True, sorted=False
|
| 119 |
+
)
|
| 120 |
+
new_scores = cupy.from_dlpack(merge_values)
|
| 121 |
+
new_indices = cupy.take_along_axis(combined_indices, cupy.from_dlpack(merge_pos), axis=1)
|
| 122 |
+
return new_scores, new_indices
|
| 123 |
+
|
| 124 |
+
|
| 125 |
+
def _tile_topk_dense(similarity_view, keep, candidate_offset_global, query_count, active_count):
|
| 126 |
+
"""Top-k inside one (Q, M) FP32 similarity tile -> global indices. Pads to
|
| 127 |
+
`keep` columns when the tile is shorter than `keep`.
|
| 128 |
+
"""
|
| 129 |
+
import cupy
|
| 130 |
+
import torch
|
| 131 |
+
|
| 132 |
+
if active_count >= keep:
|
| 133 |
+
sim_torch = torch.from_dlpack(similarity_view)
|
| 134 |
+
values, local = torch.topk(sim_torch, k=keep, dim=1, largest=True, sorted=False)
|
| 135 |
+
return (
|
| 136 |
+
cupy.from_dlpack(values),
|
| 137 |
+
cupy.from_dlpack(local).astype(cupy.int32) + cupy.int32(candidate_offset_global),
|
| 138 |
+
)
|
| 139 |
+
pad = keep - active_count
|
| 140 |
+
sub_global = cupy.arange(active_count, dtype=cupy.int32) + cupy.int32(
|
| 141 |
+
candidate_offset_global
|
| 142 |
+
)
|
| 143 |
+
indices = cupy.concatenate(
|
| 144 |
+
[
|
| 145 |
+
cupy.broadcast_to(sub_global, (query_count, active_count)),
|
| 146 |
+
cupy.full((query_count, pad), -1, dtype=cupy.int32),
|
| 147 |
+
],
|
| 148 |
+
axis=1,
|
| 149 |
+
)
|
| 150 |
+
scores = cupy.concatenate(
|
| 151 |
+
[similarity_view, cupy.full((query_count, pad), -cupy.inf, dtype=cupy.float32)],
|
| 152 |
+
axis=1,
|
| 153 |
+
)
|
| 154 |
+
return scores, indices
|
| 155 |
+
|
| 156 |
+
|
| 157 |
+
def _drop_self(sorted_scores, sorted_indices, query_global_ids, num_neighbors):
|
| 158 |
+
"""Sort each row by descending score, then drop the (up-to-one) row whose
|
| 159 |
+
index equals the query's own global id. Pure cupy, vectorized over rows.
|
| 160 |
+
"""
|
| 161 |
+
import cupy
|
| 162 |
+
|
| 163 |
+
is_self = sorted_indices == query_global_ids.reshape(-1, 1)
|
| 164 |
+
has_self = cupy.any(is_self, axis=1, keepdims=True)
|
| 165 |
+
self_pos = cupy.argmax(is_self.astype(cupy.int32), axis=1, keepdims=True)
|
| 166 |
+
rows = sorted_scores.shape[0]
|
| 167 |
+
output_columns = cupy.broadcast_to(
|
| 168 |
+
cupy.arange(num_neighbors, dtype=cupy.int32), (rows, num_neighbors)
|
| 169 |
+
)
|
| 170 |
+
shift_mask = (output_columns >= self_pos) & has_self
|
| 171 |
+
source_columns = output_columns + shift_mask.astype(cupy.int32)
|
| 172 |
+
final_scores = cupy.take_along_axis(sorted_scores, source_columns, axis=1)
|
| 173 |
+
final_indices = cupy.take_along_axis(sorted_indices, source_columns, axis=1)
|
| 174 |
+
return final_indices, final_scores
|
| 175 |
+
|
| 176 |
+
|
| 177 |
+
def gt_stripe_dense(
|
| 178 |
+
embeddings_host: np.ndarray,
|
| 179 |
+
stripe_start: int,
|
| 180 |
+
stripe_end: int,
|
| 181 |
+
num_neighbors: int,
|
| 182 |
+
query_tile_rows: int,
|
| 183 |
+
candidate_tile_rows: int,
|
| 184 |
+
log_prefix: str = "",
|
| 185 |
+
):
|
| 186 |
+
"""Compute top-k for `embeddings_host[stripe_start:stripe_end]` against
|
| 187 |
+
the *whole* `embeddings_host` corpus, with double-buffered H2D streaming
|
| 188 |
+
of candidate tiles. Returns `(indices, scores)` numpy arrays of shape
|
| 189 |
+
`(stripe_end - stripe_start, num_neighbors)` in i32 / f32.
|
| 190 |
+
|
| 191 |
+
Caller is responsible for picking the GPU (`CUDA_VISIBLE_DEVICES`).
|
| 192 |
+
"""
|
| 193 |
+
import cupy
|
| 194 |
+
import torch # noqa: F401 (used inside helpers)
|
| 195 |
+
|
| 196 |
+
total_vectors, dimensions = embeddings_host.shape
|
| 197 |
+
stripe_size = stripe_end - stripe_start
|
| 198 |
+
keep = num_neighbors + 1
|
| 199 |
+
|
| 200 |
+
query_stripe = cupy.asarray(embeddings_host[stripe_start:stripe_end])
|
| 201 |
+
|
| 202 |
+
pinned_holders = []
|
| 203 |
+
pinned_views: list[np.ndarray] = []
|
| 204 |
+
for _ in range(2):
|
| 205 |
+
pinned = cupy.cuda.alloc_pinned_memory(candidate_tile_rows * dimensions * 2)
|
| 206 |
+
pinned_holders.append(pinned)
|
| 207 |
+
view = np.frombuffer(
|
| 208 |
+
pinned, dtype=np.float16, count=candidate_tile_rows * dimensions
|
| 209 |
+
).reshape(candidate_tile_rows, dimensions)
|
| 210 |
+
pinned_views.append(view)
|
| 211 |
+
|
| 212 |
+
candidate_buffers = [
|
| 213 |
+
cupy.empty((candidate_tile_rows, dimensions), dtype=cupy.float16),
|
| 214 |
+
cupy.empty((candidate_tile_rows, dimensions), dtype=cupy.float16),
|
| 215 |
+
]
|
| 216 |
+
similarity_buffer = cupy.empty(
|
| 217 |
+
(query_tile_rows, candidate_tile_rows), dtype=cupy.float32
|
| 218 |
+
)
|
| 219 |
+
topk_scores = cupy.full((stripe_size, keep), -cupy.inf, dtype=cupy.float32)
|
| 220 |
+
topk_indices = cupy.full((stripe_size, keep), -1, dtype=cupy.int32)
|
| 221 |
+
|
| 222 |
+
copy_stream = cupy.cuda.Stream(non_blocking=True)
|
| 223 |
+
compute_stream = cupy.cuda.Stream(non_blocking=True)
|
| 224 |
+
copy_done = [
|
| 225 |
+
cupy.cuda.Event(disable_timing=True),
|
| 226 |
+
cupy.cuda.Event(disable_timing=True),
|
| 227 |
+
]
|
| 228 |
+
compute_done = [
|
| 229 |
+
cupy.cuda.Event(disable_timing=True),
|
| 230 |
+
cupy.cuda.Event(disable_timing=True),
|
| 231 |
+
]
|
| 232 |
+
|
| 233 |
+
candidate_offsets = list(range(0, total_vectors, candidate_tile_rows))
|
| 234 |
+
|
| 235 |
+
def stage(slot: int, tile_offset: int) -> int:
|
| 236 |
+
count = min(candidate_tile_rows, total_vectors - tile_offset)
|
| 237 |
+
copy_done[slot].synchronize()
|
| 238 |
+
np.copyto(
|
| 239 |
+
pinned_views[slot][:count],
|
| 240 |
+
embeddings_host[tile_offset : tile_offset + count],
|
| 241 |
+
)
|
| 242 |
+
copy_stream.wait_event(compute_done[slot])
|
| 243 |
+
candidate_buffers[slot][:count].set(pinned_views[slot][:count], stream=copy_stream)
|
| 244 |
+
copy_done[slot].record(copy_stream)
|
| 245 |
+
return count
|
| 246 |
+
|
| 247 |
+
counts = [0, 0]
|
| 248 |
+
for slot in range(min(2, len(candidate_offsets))):
|
| 249 |
+
counts[slot] = stage(slot, candidate_offsets[slot])
|
| 250 |
+
|
| 251 |
+
started = time.monotonic()
|
| 252 |
+
for tile_idx, tile_offset in enumerate(candidate_offsets):
|
| 253 |
+
slot = tile_idx % 2
|
| 254 |
+
active_count = counts[slot]
|
| 255 |
+
active_device = candidate_buffers[slot][:active_count]
|
| 256 |
+
compute_stream.wait_event(copy_done[slot])
|
| 257 |
+
|
| 258 |
+
with compute_stream:
|
| 259 |
+
for query_start in range(0, stripe_size, query_tile_rows):
|
| 260 |
+
query_end = min(query_start + query_tile_rows, stripe_size)
|
| 261 |
+
query_count = query_end - query_start
|
| 262 |
+
similarity_view = similarity_buffer[:query_count, :active_count]
|
| 263 |
+
cupy.matmul(
|
| 264 |
+
query_stripe[query_start:query_end],
|
| 265 |
+
active_device.T,
|
| 266 |
+
out=similarity_view,
|
| 267 |
+
)
|
| 268 |
+
tile_scores, tile_indices = _tile_topk_dense(
|
| 269 |
+
similarity_view, keep, tile_offset, query_count, active_count
|
| 270 |
+
)
|
| 271 |
+
new_scores, new_indices = _topk_merge(
|
| 272 |
+
topk_scores[query_start:query_end],
|
| 273 |
+
topk_indices[query_start:query_end],
|
| 274 |
+
tile_scores,
|
| 275 |
+
tile_indices,
|
| 276 |
+
keep,
|
| 277 |
+
)
|
| 278 |
+
topk_scores[query_start:query_end] = new_scores
|
| 279 |
+
topk_indices[query_start:query_end] = new_indices
|
| 280 |
+
compute_done[slot].record(compute_stream)
|
| 281 |
+
|
| 282 |
+
prefetch_idx = tile_idx + 2
|
| 283 |
+
if prefetch_idx < len(candidate_offsets):
|
| 284 |
+
counts[slot] = stage(slot, candidate_offsets[prefetch_idx])
|
| 285 |
+
|
| 286 |
+
if (tile_idx + 1) % 32 == 0 or tile_idx + 1 == len(candidate_offsets):
|
| 287 |
+
compute_stream.synchronize()
|
| 288 |
+
cupy.get_default_memory_pool().free_all_blocks()
|
| 289 |
+
elapsed = time.monotonic() - started
|
| 290 |
+
done = (tile_idx + 1) * candidate_tile_rows
|
| 291 |
+
rate = done / max(elapsed, 1e-3) / 1e6
|
| 292 |
+
print(
|
| 293 |
+
f"{log_prefix}tile {tile_idx + 1}/{len(candidate_offsets)} "
|
| 294 |
+
f"elapsed {elapsed:.0f}s ({rate:.2f}M cand/s)",
|
| 295 |
+
flush=True,
|
| 296 |
+
)
|
| 297 |
+
|
| 298 |
+
compute_stream.synchronize()
|
| 299 |
+
|
| 300 |
+
sorted_order = cupy.argsort(-topk_scores, axis=1)
|
| 301 |
+
sorted_scores = cupy.take_along_axis(topk_scores, sorted_order, axis=1)
|
| 302 |
+
sorted_indices = cupy.take_along_axis(topk_indices, sorted_order, axis=1)
|
| 303 |
+
query_global_ids = cupy.arange(stripe_start, stripe_end, dtype=cupy.int32)
|
| 304 |
+
final_indices, final_scores = _drop_self(
|
| 305 |
+
sorted_scores, sorted_indices, query_global_ids, num_neighbors
|
| 306 |
+
)
|
| 307 |
+
return cupy.asnumpy(final_indices), cupy.asnumpy(final_scores)
|
| 308 |
+
|
| 309 |
+
|
| 310 |
+
def gt_stripe_maxsim(
|
| 311 |
+
token_bank_host: np.ndarray,
|
| 312 |
+
section_offsets_host: np.ndarray,
|
| 313 |
+
stripe_start_section: int,
|
| 314 |
+
stripe_end_section: int,
|
| 315 |
+
num_neighbors: int,
|
| 316 |
+
query_tile_sections: int,
|
| 317 |
+
candidate_tile_sections: int,
|
| 318 |
+
log_prefix: str = "",
|
| 319 |
+
):
|
| 320 |
+
"""Compute MaxSim top-k for sections in
|
| 321 |
+
`[stripe_start_section, stripe_end_section)` against the whole section
|
| 322 |
+
corpus. Returns `(indices, scores)` numpy arrays of shape
|
| 323 |
+
`(stripe_size, num_neighbors)`.
|
| 324 |
+
|
| 325 |
+
`token_bank_host` is `(T_total, dim)` FP16; `section_offsets_host` is
|
| 326 |
+
`(N+1,)` int32 with cumulative token counts (so section i's tokens live
|
| 327 |
+
at rows `[offsets[i]:offsets[i+1]]`).
|
| 328 |
+
"""
|
| 329 |
+
import cupy
|
| 330 |
+
import torch # noqa: F401
|
| 331 |
+
|
| 332 |
+
total_sections = section_offsets_host.shape[0] - 1
|
| 333 |
+
dimensions = token_bank_host.shape[1]
|
| 334 |
+
stripe_size = stripe_end_section - stripe_start_section
|
| 335 |
+
keep = num_neighbors + 1
|
| 336 |
+
|
| 337 |
+
query_token_start = int(section_offsets_host[stripe_start_section])
|
| 338 |
+
query_token_end = int(section_offsets_host[stripe_end_section])
|
| 339 |
+
query_token_count = query_token_end - query_token_start
|
| 340 |
+
query_tokens_device = cupy.asarray(token_bank_host[query_token_start:query_token_end])
|
| 341 |
+
# Per-stripe local section offsets (zeroed against query_token_start).
|
| 342 |
+
query_section_offsets_local = (
|
| 343 |
+
section_offsets_host[stripe_start_section : stripe_end_section + 1]
|
| 344 |
+
- query_token_start
|
| 345 |
+
).astype(np.int32)
|
| 346 |
+
query_section_offsets_device = cupy.asarray(query_section_offsets_local)
|
| 347 |
+
|
| 348 |
+
seg_max_kernel, seg_sum_kernel = _segment_kernels()
|
| 349 |
+
|
| 350 |
+
candidate_starts = list(range(0, total_sections, candidate_tile_sections))
|
| 351 |
+
|
| 352 |
+
# Pre-compute per-tile token byte budget so we can size pinned buffers.
|
| 353 |
+
max_tile_tokens = 0
|
| 354 |
+
for cand_start in candidate_starts:
|
| 355 |
+
cand_end = min(cand_start + candidate_tile_sections, total_sections)
|
| 356 |
+
tile_tokens = int(
|
| 357 |
+
section_offsets_host[cand_end] - section_offsets_host[cand_start]
|
| 358 |
+
)
|
| 359 |
+
if tile_tokens > max_tile_tokens:
|
| 360 |
+
max_tile_tokens = tile_tokens
|
| 361 |
+
|
| 362 |
+
pinned_holders = []
|
| 363 |
+
pinned_views: list[np.ndarray] = []
|
| 364 |
+
for _ in range(2):
|
| 365 |
+
pinned = cupy.cuda.alloc_pinned_memory(max_tile_tokens * dimensions * 2)
|
| 366 |
+
pinned_holders.append(pinned)
|
| 367 |
+
view = np.frombuffer(
|
| 368 |
+
pinned, dtype=np.float16, count=max_tile_tokens * dimensions
|
| 369 |
+
).reshape(max_tile_tokens, dimensions)
|
| 370 |
+
pinned_views.append(view)
|
| 371 |
+
|
| 372 |
+
doc_token_buffers = [
|
| 373 |
+
cupy.empty((max_tile_tokens, dimensions), dtype=cupy.float16),
|
| 374 |
+
cupy.empty((max_tile_tokens, dimensions), dtype=cupy.float16),
|
| 375 |
+
]
|
| 376 |
+
doc_offsets_buffers = [
|
| 377 |
+
cupy.empty((candidate_tile_sections + 1,), dtype=cupy.int32),
|
| 378 |
+
cupy.empty((candidate_tile_sections + 1,), dtype=cupy.int32),
|
| 379 |
+
]
|
| 380 |
+
|
| 381 |
+
# Pre-allocated FP32 scratch buffers reused across tiles.
|
| 382 |
+
sim_buffer = cupy.empty(
|
| 383 |
+
(query_tile_sections * 64, max_tile_tokens), dtype=cupy.float32
|
| 384 |
+
)
|
| 385 |
+
# Bound on per-stripe query tokens per tile is `max query tokens` over the
|
| 386 |
+
# query stripe. A safe upper bound for the buffer is the full stripe's
|
| 387 |
+
# token count, but we tile queries by section count too — so size
|
| 388 |
+
# generously to avoid mid-loop re-allocs.
|
| 389 |
+
max_query_tokens_per_tile = int(
|
| 390 |
+
max(
|
| 391 |
+
section_offsets_host[
|
| 392 |
+
min(stripe_start_section + query_tile_sections, stripe_end_section)
|
| 393 |
+
]
|
| 394 |
+
- section_offsets_host[stripe_start_section],
|
| 395 |
+
section_offsets_host[stripe_end_section]
|
| 396 |
+
- section_offsets_host[
|
| 397 |
+
max(stripe_end_section - query_tile_sections, stripe_start_section)
|
| 398 |
+
],
|
| 399 |
+
)
|
| 400 |
+
)
|
| 401 |
+
# Re-size sim_buffer if it's too small for the worst-case (q_tokens, m_tokens).
|
| 402 |
+
if sim_buffer.shape[0] < max_query_tokens_per_tile:
|
| 403 |
+
sim_buffer = cupy.empty(
|
| 404 |
+
(max_query_tokens_per_tile, max_tile_tokens), dtype=cupy.float32
|
| 405 |
+
)
|
| 406 |
+
per_token_max = cupy.empty(
|
| 407 |
+
(max_query_tokens_per_tile, candidate_tile_sections), dtype=cupy.float32
|
| 408 |
+
)
|
| 409 |
+
score_out = cupy.empty(
|
| 410 |
+
(query_tile_sections, candidate_tile_sections), dtype=cupy.float32
|
| 411 |
+
)
|
| 412 |
+
|
| 413 |
+
topk_scores = cupy.full((stripe_size, keep), -cupy.inf, dtype=cupy.float32)
|
| 414 |
+
topk_indices = cupy.full((stripe_size, keep), -1, dtype=cupy.int32)
|
| 415 |
+
|
| 416 |
+
copy_stream = cupy.cuda.Stream(non_blocking=True)
|
| 417 |
+
compute_stream = cupy.cuda.Stream(non_blocking=True)
|
| 418 |
+
copy_done = [
|
| 419 |
+
cupy.cuda.Event(disable_timing=True),
|
| 420 |
+
cupy.cuda.Event(disable_timing=True),
|
| 421 |
+
]
|
| 422 |
+
compute_done = [
|
| 423 |
+
cupy.cuda.Event(disable_timing=True),
|
| 424 |
+
cupy.cuda.Event(disable_timing=True),
|
| 425 |
+
]
|
| 426 |
+
|
| 427 |
+
def stage(slot: int, cand_start: int):
|
| 428 |
+
cand_end = min(cand_start + candidate_tile_sections, total_sections)
|
| 429 |
+
section_count = cand_end - cand_start
|
| 430 |
+
token_start = int(section_offsets_host[cand_start])
|
| 431 |
+
token_end = int(section_offsets_host[cand_end])
|
| 432 |
+
token_count = token_end - token_start
|
| 433 |
+
copy_done[slot].synchronize()
|
| 434 |
+
np.copyto(
|
| 435 |
+
pinned_views[slot][:token_count],
|
| 436 |
+
token_bank_host[token_start:token_end],
|
| 437 |
+
)
|
| 438 |
+
# Local doc offsets, zeroed against token_start.
|
| 439 |
+
local_offsets = (
|
| 440 |
+
section_offsets_host[cand_start : cand_end + 1] - token_start
|
| 441 |
+
).astype(np.int32)
|
| 442 |
+
copy_stream.wait_event(compute_done[slot])
|
| 443 |
+
doc_token_buffers[slot][:token_count].set(
|
| 444 |
+
pinned_views[slot][:token_count], stream=copy_stream
|
| 445 |
+
)
|
| 446 |
+
doc_offsets_buffers[slot][: section_count + 1].set(
|
| 447 |
+
local_offsets, stream=copy_stream
|
| 448 |
+
)
|
| 449 |
+
copy_done[slot].record(copy_stream)
|
| 450 |
+
return section_count, token_count
|
| 451 |
+
|
| 452 |
+
counts = [(0, 0), (0, 0)]
|
| 453 |
+
for slot in range(min(2, len(candidate_starts))):
|
| 454 |
+
counts[slot] = stage(slot, candidate_starts[slot])
|
| 455 |
+
|
| 456 |
+
block = (16, 16, 1)
|
| 457 |
+
started = time.monotonic()
|
| 458 |
+
|
| 459 |
+
for tile_idx, cand_start in enumerate(candidate_starts):
|
| 460 |
+
slot = tile_idx % 2
|
| 461 |
+
section_count, token_count = counts[slot]
|
| 462 |
+
if section_count == 0:
|
| 463 |
+
continue
|
| 464 |
+
compute_stream.wait_event(copy_done[slot])
|
| 465 |
+
|
| 466 |
+
doc_tokens_dev = doc_token_buffers[slot][:token_count]
|
| 467 |
+
doc_offsets_dev = doc_offsets_buffers[slot][: section_count + 1]
|
| 468 |
+
|
| 469 |
+
with compute_stream:
|
| 470 |
+
for q_section_start in range(0, stripe_size, query_tile_sections):
|
| 471 |
+
q_section_end = min(q_section_start + query_tile_sections, stripe_size)
|
| 472 |
+
q_count = q_section_end - q_section_start
|
| 473 |
+
q_token_lo = int(query_section_offsets_local[q_section_start])
|
| 474 |
+
q_token_hi = int(query_section_offsets_local[q_section_end])
|
| 475 |
+
q_token_count = q_token_hi - q_token_lo
|
| 476 |
+
if q_token_count == 0:
|
| 477 |
+
continue
|
| 478 |
+
q_tokens_dev = query_tokens_device[q_token_lo:q_token_hi]
|
| 479 |
+
# Local query offsets for this micro-batch (zeroed against q_token_lo).
|
| 480 |
+
q_offsets_micro = (
|
| 481 |
+
query_section_offsets_device[q_section_start : q_section_end + 1]
|
| 482 |
+
- cupy.int32(q_token_lo)
|
| 483 |
+
)
|
| 484 |
+
|
| 485 |
+
sim_view = sim_buffer[:q_token_count, :token_count]
|
| 486 |
+
cupy.matmul(q_tokens_dev, doc_tokens_dev.T, out=sim_view)
|
| 487 |
+
|
| 488 |
+
pt_max_view = per_token_max[:q_token_count, :section_count]
|
| 489 |
+
grid_max = (
|
| 490 |
+
(section_count + block[0] - 1) // block[0],
|
| 491 |
+
(q_token_count + block[1] - 1) // block[1],
|
| 492 |
+
1,
|
| 493 |
+
)
|
| 494 |
+
seg_max_kernel(
|
| 495 |
+
grid_max,
|
| 496 |
+
block,
|
| 497 |
+
(
|
| 498 |
+
sim_view,
|
| 499 |
+
doc_offsets_dev,
|
| 500 |
+
pt_max_view,
|
| 501 |
+
np.int32(q_token_count),
|
| 502 |
+
np.int32(section_count),
|
| 503 |
+
np.int32(sim_buffer.shape[1]),
|
| 504 |
+
np.int32(per_token_max.shape[1]),
|
| 505 |
+
),
|
| 506 |
+
)
|
| 507 |
+
|
| 508 |
+
score_view = score_out[:q_count, :section_count]
|
| 509 |
+
grid_sum = (
|
| 510 |
+
(section_count + block[0] - 1) // block[0],
|
| 511 |
+
(q_count + block[1] - 1) // block[1],
|
| 512 |
+
1,
|
| 513 |
+
)
|
| 514 |
+
seg_sum_kernel(
|
| 515 |
+
grid_sum,
|
| 516 |
+
block,
|
| 517 |
+
(
|
| 518 |
+
pt_max_view,
|
| 519 |
+
q_offsets_micro,
|
| 520 |
+
score_view,
|
| 521 |
+
np.int32(q_count),
|
| 522 |
+
np.int32(section_count),
|
| 523 |
+
np.int32(per_token_max.shape[1]),
|
| 524 |
+
np.int32(score_out.shape[1]),
|
| 525 |
+
),
|
| 526 |
+
)
|
| 527 |
+
|
| 528 |
+
tile_scores, tile_indices = _tile_topk_dense(
|
| 529 |
+
score_view, keep, cand_start, q_count, section_count
|
| 530 |
+
)
|
| 531 |
+
new_scores, new_indices = _topk_merge(
|
| 532 |
+
topk_scores[q_section_start:q_section_end],
|
| 533 |
+
topk_indices[q_section_start:q_section_end],
|
| 534 |
+
tile_scores,
|
| 535 |
+
tile_indices,
|
| 536 |
+
keep,
|
| 537 |
+
)
|
| 538 |
+
topk_scores[q_section_start:q_section_end] = new_scores
|
| 539 |
+
topk_indices[q_section_start:q_section_end] = new_indices
|
| 540 |
+
compute_done[slot].record(compute_stream)
|
| 541 |
+
|
| 542 |
+
prefetch_idx = tile_idx + 2
|
| 543 |
+
if prefetch_idx < len(candidate_starts):
|
| 544 |
+
counts[slot] = stage(slot, candidate_starts[prefetch_idx])
|
| 545 |
+
|
| 546 |
+
if (tile_idx + 1) % 32 == 0 or tile_idx + 1 == len(candidate_starts):
|
| 547 |
+
compute_stream.synchronize()
|
| 548 |
+
cupy.get_default_memory_pool().free_all_blocks()
|
| 549 |
+
elapsed = time.monotonic() - started
|
| 550 |
+
done = (tile_idx + 1) * candidate_tile_sections
|
| 551 |
+
rate = done / max(elapsed, 1e-3) / 1e6
|
| 552 |
+
print(
|
| 553 |
+
f"{log_prefix}tile {tile_idx + 1}/{len(candidate_starts)} "
|
| 554 |
+
f"elapsed {elapsed:.0f}s ({rate:.2f}M sect/s)",
|
| 555 |
+
flush=True,
|
| 556 |
+
)
|
| 557 |
+
|
| 558 |
+
compute_stream.synchronize()
|
| 559 |
+
|
| 560 |
+
sorted_order = cupy.argsort(-topk_scores, axis=1)
|
| 561 |
+
sorted_scores = cupy.take_along_axis(topk_scores, sorted_order, axis=1)
|
| 562 |
+
sorted_indices = cupy.take_along_axis(topk_indices, sorted_order, axis=1)
|
| 563 |
+
query_global_ids = cupy.arange(
|
| 564 |
+
stripe_start_section, stripe_end_section, dtype=cupy.int32
|
| 565 |
+
)
|
| 566 |
+
final_indices, final_scores = _drop_self(
|
| 567 |
+
sorted_scores, sorted_indices, query_global_ids, num_neighbors
|
| 568 |
+
)
|
| 569 |
+
return cupy.asnumpy(final_indices), cupy.asnumpy(final_scores)
|
| 570 |
+
|
| 571 |
+
|
| 572 |
+
# ---------------------------------------------------------------------------
|
| 573 |
+
# Consumer-facing classes: load corpus once, search many.
|
| 574 |
+
# ---------------------------------------------------------------------------
|
| 575 |
+
|
| 576 |
+
|
| 577 |
+
def _read_header(path: Path) -> tuple[int, int]:
|
| 578 |
+
blob = resolve_lfs_pointer(path)
|
| 579 |
+
with open(blob, "rb") as file:
|
| 580 |
+
rows, columns = struct.unpack("<II", file.read(8))
|
| 581 |
+
return rows, columns
|
| 582 |
+
|
| 583 |
+
|
| 584 |
+
def _load_dense_corpus_to_host(
|
| 585 |
+
model_root: Path, suffix: str, shards: list[CollectionShard]
|
| 586 |
+
) -> tuple[np.ndarray, int]:
|
| 587 |
+
"""Same data-load contract as `ground_truth.load_collection` but kept here
|
| 588 |
+
so `DenseRetriever` doesn't need to import the GT script.
|
| 589 |
+
"""
|
| 590 |
+
if not shards:
|
| 591 |
+
raise ValueError(f"no shards under {model_root}")
|
| 592 |
+
_, dimensions = _read_header(shards[0].path)
|
| 593 |
+
total = sum(s.row_count for s in shards)
|
| 594 |
+
embeddings = np.empty((total, dimensions), dtype=np.float16)
|
| 595 |
+
for shard in shards:
|
| 596 |
+
blob = resolve_lfs_pointer(shard.path)
|
| 597 |
+
with open(blob, "rb") as file:
|
| 598 |
+
file.seek(8)
|
| 599 |
+
destination = embeddings[shard.row_offset : shard.row_offset + shard.row_count]
|
| 600 |
+
file.readinto(memoryview(destination)) # type: ignore[arg-type]
|
| 601 |
+
bad = ~np.isfinite(embeddings).all(axis=1)
|
| 602 |
+
if bad.any():
|
| 603 |
+
embeddings[bad] = 0
|
| 604 |
+
return embeddings, dimensions
|
| 605 |
+
|
| 606 |
+
|
| 607 |
+
def _load_maxsim_corpus_to_host(
|
| 608 |
+
model_root: Path, suffix: str
|
| 609 |
+
) -> tuple[np.ndarray, np.ndarray, list[CollectionShard], int]:
|
| 610 |
+
"""Walk `*.{suffix}.sections.f16bin` + `*.sections.offsets.ibin` shards in
|
| 611 |
+
canonical order. Return `(token_bank, section_offsets, shards, dimensions)`.
|
| 612 |
+
|
| 613 |
+
`section_offsets` has shape `(total_sections + 1,)` int32 cumulative across
|
| 614 |
+
all shards (so section i's tokens are at `token_bank[offsets[i]:offsets[i+1]]`).
|
| 615 |
+
Each `CollectionShard.row_count` is the number of *sections* in that shard,
|
| 616 |
+
`row_offset` is the cumulative section count.
|
| 617 |
+
"""
|
| 618 |
+
if not model_root.is_dir():
|
| 619 |
+
raise FileNotFoundError(f"no model directory at {model_root}")
|
| 620 |
+
shards: list[CollectionShard] = []
|
| 621 |
+
cumulative_sections = 0
|
| 622 |
+
cumulative_tokens = 0
|
| 623 |
+
section_offsets_chunks: list[np.ndarray] = []
|
| 624 |
+
section_offsets_chunks.append(np.zeros(1, dtype=np.int32))
|
| 625 |
+
token_chunks: list[tuple[int, int, Path]] = [] # (offset_in_bank, token_count, path)
|
| 626 |
+
dimensions: int | None = None
|
| 627 |
+
for wiki_dir in sorted(model_root.iterdir()):
|
| 628 |
+
if not wiki_dir.is_dir():
|
| 629 |
+
continue
|
| 630 |
+
for path in sorted(wiki_dir.glob(f"*.{suffix}.sections.f16bin")):
|
| 631 |
+
stem = path.name[: -len(f".{suffix}.sections.f16bin")]
|
| 632 |
+
tokens, dim = _read_header(path)
|
| 633 |
+
if dimensions is None:
|
| 634 |
+
dimensions = dim
|
| 635 |
+
elif dim != dimensions:
|
| 636 |
+
raise ValueError(f"{path}: dim {dim} != expected {dimensions}")
|
| 637 |
+
offsets_path = wiki_dir / f"{stem}.{suffix}.sections.offsets.ibin"
|
| 638 |
+
if not offsets_path.is_file():
|
| 639 |
+
raise FileNotFoundError(f"missing offsets file: {offsets_path}")
|
| 640 |
+
offsets_blob = resolve_lfs_pointer(offsets_path)
|
| 641 |
+
with open(offsets_blob, "rb") as file:
|
| 642 |
+
rows, _cols = struct.unpack("<II", file.read(8))
|
| 643 |
+
local_offsets = np.frombuffer(
|
| 644 |
+
file.read(), dtype=np.int32, count=rows
|
| 645 |
+
).copy()
|
| 646 |
+
n_sections = rows - 1
|
| 647 |
+
shifted = (local_offsets + cumulative_tokens).astype(np.int32)
|
| 648 |
+
# `local_offsets` already starts at 0; we drop the first element of
|
| 649 |
+
# subsequent chunks since `cumulative_tokens` provides the seam.
|
| 650 |
+
section_offsets_chunks.append(shifted[1:])
|
| 651 |
+
shards.append(
|
| 652 |
+
CollectionShard(
|
| 653 |
+
wikiname=wiki_dir.name,
|
| 654 |
+
stem=stem,
|
| 655 |
+
path=path,
|
| 656 |
+
row_offset=cumulative_sections,
|
| 657 |
+
row_count=n_sections,
|
| 658 |
+
)
|
| 659 |
+
)
|
| 660 |
+
token_chunks.append((cumulative_tokens, tokens, path))
|
| 661 |
+
cumulative_sections += n_sections
|
| 662 |
+
cumulative_tokens += tokens
|
| 663 |
+
if dimensions is None:
|
| 664 |
+
raise FileNotFoundError(f"no `.{suffix}.sections.f16bin` files under {model_root}")
|
| 665 |
+
|
| 666 |
+
token_bank = np.empty((cumulative_tokens, dimensions), dtype=np.float16)
|
| 667 |
+
for token_offset, token_count, path in token_chunks:
|
| 668 |
+
blob = resolve_lfs_pointer(path)
|
| 669 |
+
with open(blob, "rb") as file:
|
| 670 |
+
file.seek(8)
|
| 671 |
+
destination = token_bank[token_offset : token_offset + token_count]
|
| 672 |
+
file.readinto(memoryview(destination)) # type: ignore[arg-type]
|
| 673 |
+
bad = ~np.isfinite(token_bank).all(axis=1)
|
| 674 |
+
if bad.any():
|
| 675 |
+
token_bank[bad] = 0
|
| 676 |
+
section_offsets = np.concatenate(section_offsets_chunks).astype(np.int32)
|
| 677 |
+
return token_bank, section_offsets, shards, dimensions
|
| 678 |
+
|
| 679 |
+
|
| 680 |
+
class DenseRetriever:
|
| 681 |
+
"""Brute-force exact cosine top-k for a dense embedding collection.
|
| 682 |
+
|
| 683 |
+
Loads the entire `(N, dim)` FP16 corpus to one GPU at construction. Each
|
| 684 |
+
`search()` call runs a single matmul + top-k against that resident corpus.
|
| 685 |
+
|
| 686 |
+
For 60M × 1024 FP16 (~120 GB) the corpus does NOT fit on a single 80 GB
|
| 687 |
+
H100 — quantize on-disk before instantiating, or use the multi-GPU
|
| 688 |
+
`gt_stripe_dense` path directly. The single-resident-corpus class is
|
| 689 |
+
designed for moderate-size collections (≤ tens of GB).
|
| 690 |
+
"""
|
| 691 |
+
|
| 692 |
+
def __init__(
|
| 693 |
+
self,
|
| 694 |
+
model_root: str | Path,
|
| 695 |
+
suffix: str = "body",
|
| 696 |
+
device_id: int = 0,
|
| 697 |
+
):
|
| 698 |
+
import os
|
| 699 |
+
|
| 700 |
+
os.environ["CUDA_VISIBLE_DEVICES"] = str(device_id)
|
| 701 |
+
import cupy
|
| 702 |
+
|
| 703 |
+
model_root = Path(model_root)
|
| 704 |
+
self.model_root = model_root
|
| 705 |
+
self.suffix = suffix
|
| 706 |
+
self.shards = discover_collection(model_root, suffix)
|
| 707 |
+
embeddings_host, self.dimensions = _load_dense_corpus_to_host(
|
| 708 |
+
model_root, suffix, self.shards
|
| 709 |
+
)
|
| 710 |
+
self.total_vectors = embeddings_host.shape[0]
|
| 711 |
+
# Resident on GPU — caller pays the upfront cost; subsequent searches
|
| 712 |
+
# are bandwidth-bound on the matmul alone.
|
| 713 |
+
self.corpus_device = cupy.asarray(embeddings_host)
|
| 714 |
+
|
| 715 |
+
def search(
|
| 716 |
+
self, query_vectors: np.ndarray, k: int = 10
|
| 717 |
+
) -> tuple[np.ndarray, np.ndarray]:
|
| 718 |
+
"""`query_vectors`: `(Q, dim)` FP16, already L2-normalized.
|
| 719 |
+
Returns `(scores, indices)` — both `(Q, k)` numpy arrays.
|
| 720 |
+
"""
|
| 721 |
+
import cupy
|
| 722 |
+
import torch # noqa: F401
|
| 723 |
+
|
| 724 |
+
if query_vectors.ndim != 2 or query_vectors.shape[1] != self.dimensions:
|
| 725 |
+
raise ValueError(
|
| 726 |
+
f"queries shape {query_vectors.shape} != (?, {self.dimensions})"
|
| 727 |
+
)
|
| 728 |
+
queries_dev = cupy.asarray(query_vectors.astype(np.float16, copy=False))
|
| 729 |
+
sim = cupy.matmul(queries_dev, self.corpus_device.T, dtype=cupy.float32)
|
| 730 |
+
sim_torch = torch.from_dlpack(sim)
|
| 731 |
+
values, local = torch.topk(sim_torch, k=k, dim=1, largest=True, sorted=True)
|
| 732 |
+
return cupy.asnumpy(cupy.from_dlpack(values)), cupy.asnumpy(
|
| 733 |
+
cupy.from_dlpack(local).astype(cupy.int32)
|
| 734 |
+
)
|
| 735 |
+
|
| 736 |
+
|
| 737 |
+
class MaxSimRetriever:
|
| 738 |
+
"""Brute-force exact MaxSim top-k for a multi-vector section corpus.
|
| 739 |
+
|
| 740 |
+
Loads the full token bank + section offsets to one GPU at construction.
|
| 741 |
+
`search()` accepts a query in the same `(token_bank, offsets)` shape and
|
| 742 |
+
runs matmul + segment-max + segment-sum + top-k against the resident
|
| 743 |
+
corpus.
|
| 744 |
+
|
| 745 |
+
For 60 M sections × 128 dim with average 3.4 tokens/section the resident
|
| 746 |
+
bank is ~52 GB FP16 — fits on H100 with margin only after FP8/int8
|
| 747 |
+
quantization, or on B200 / multi-GPU for raw FP16.
|
| 748 |
+
"""
|
| 749 |
+
|
| 750 |
+
def __init__(
|
| 751 |
+
self,
|
| 752 |
+
model_root: str | Path,
|
| 753 |
+
suffix: str = "body",
|
| 754 |
+
device_id: int = 0,
|
| 755 |
+
):
|
| 756 |
+
import os
|
| 757 |
+
|
| 758 |
+
os.environ["CUDA_VISIBLE_DEVICES"] = str(device_id)
|
| 759 |
+
import cupy
|
| 760 |
+
|
| 761 |
+
model_root = Path(model_root)
|
| 762 |
+
self.model_root = model_root
|
| 763 |
+
self.suffix = suffix
|
| 764 |
+
(
|
| 765 |
+
token_bank_host,
|
| 766 |
+
section_offsets_host,
|
| 767 |
+
self.shards,
|
| 768 |
+
self.dimensions,
|
| 769 |
+
) = _load_maxsim_corpus_to_host(model_root, suffix)
|
| 770 |
+
self.total_sections = section_offsets_host.shape[0] - 1
|
| 771 |
+
self.total_tokens = token_bank_host.shape[0]
|
| 772 |
+
self.token_bank_device = cupy.asarray(token_bank_host)
|
| 773 |
+
self.section_offsets_device = cupy.asarray(section_offsets_host)
|
| 774 |
+
|
| 775 |
+
def search(
|
| 776 |
+
self,
|
| 777 |
+
query_token_bank: np.ndarray,
|
| 778 |
+
query_section_offsets: np.ndarray,
|
| 779 |
+
k: int = 10,
|
| 780 |
+
) -> tuple[np.ndarray, np.ndarray]:
|
| 781 |
+
"""`query_token_bank`: `(T_q, dim)` FP16. `query_section_offsets`:
|
| 782 |
+
`(Q+1,)` int32 cumulative. Returns `(scores, indices)` — `(Q, k)`.
|
| 783 |
+
"""
|
| 784 |
+
import cupy
|
| 785 |
+
import torch # noqa: F401
|
| 786 |
+
|
| 787 |
+
if query_token_bank.ndim != 2 or query_token_bank.shape[1] != self.dimensions:
|
| 788 |
+
raise ValueError(
|
| 789 |
+
f"queries shape {query_token_bank.shape} != (?, {self.dimensions})"
|
| 790 |
+
)
|
| 791 |
+
n_queries = query_section_offsets.shape[0] - 1
|
| 792 |
+
seg_max_kernel, seg_sum_kernel = _segment_kernels()
|
| 793 |
+
|
| 794 |
+
queries_dev = cupy.asarray(query_token_bank.astype(np.float16, copy=False))
|
| 795 |
+
q_offsets_dev = cupy.asarray(query_section_offsets.astype(np.int32, copy=False))
|
| 796 |
+
|
| 797 |
+
sim = cupy.matmul(queries_dev, self.token_bank_device.T, dtype=cupy.float32)
|
| 798 |
+
per_token_max = cupy.empty(
|
| 799 |
+
(queries_dev.shape[0], self.total_sections), dtype=cupy.float32
|
| 800 |
+
)
|
| 801 |
+
block = (16, 16, 1)
|
| 802 |
+
grid_max = (
|
| 803 |
+
(self.total_sections + block[0] - 1) // block[0],
|
| 804 |
+
(queries_dev.shape[0] + block[1] - 1) // block[1],
|
| 805 |
+
1,
|
| 806 |
+
)
|
| 807 |
+
seg_max_kernel(
|
| 808 |
+
grid_max,
|
| 809 |
+
block,
|
| 810 |
+
(
|
| 811 |
+
sim,
|
| 812 |
+
self.section_offsets_device,
|
| 813 |
+
per_token_max,
|
| 814 |
+
np.int32(queries_dev.shape[0]),
|
| 815 |
+
np.int32(self.total_sections),
|
| 816 |
+
np.int32(sim.shape[1]),
|
| 817 |
+
np.int32(per_token_max.shape[1]),
|
| 818 |
+
),
|
| 819 |
+
)
|
| 820 |
+
|
| 821 |
+
scores = cupy.empty((n_queries, self.total_sections), dtype=cupy.float32)
|
| 822 |
+
grid_sum = (
|
| 823 |
+
(self.total_sections + block[0] - 1) // block[0],
|
| 824 |
+
(n_queries + block[1] - 1) // block[1],
|
| 825 |
+
1,
|
| 826 |
+
)
|
| 827 |
+
seg_sum_kernel(
|
| 828 |
+
grid_sum,
|
| 829 |
+
block,
|
| 830 |
+
(
|
| 831 |
+
per_token_max,
|
| 832 |
+
q_offsets_dev,
|
| 833 |
+
scores,
|
| 834 |
+
np.int32(n_queries),
|
| 835 |
+
np.int32(self.total_sections),
|
| 836 |
+
np.int32(per_token_max.shape[1]),
|
| 837 |
+
np.int32(scores.shape[1]),
|
| 838 |
+
),
|
| 839 |
+
)
|
| 840 |
+
|
| 841 |
+
scores_torch = torch.from_dlpack(scores)
|
| 842 |
+
values, local = torch.topk(scores_torch, k=k, dim=1, largest=True, sorted=True)
|
| 843 |
+
return cupy.asnumpy(cupy.from_dlpack(values)), cupy.asnumpy(
|
| 844 |
+
cupy.from_dlpack(local).astype(cupy.int32)
|
| 845 |
+
)
|
|
@@ -22,7 +22,7 @@ import numpy as np
|
|
| 22 |
REPO_ROOT = Path(__file__).resolve().parent.parent
|
| 23 |
sys.path.insert(0, str(REPO_ROOT))
|
| 24 |
|
| 25 |
-
from
|
| 26 |
|
| 27 |
|
| 28 |
def normalize_rows(matrix: np.ndarray) -> np.ndarray:
|
|
|
|
| 22 |
REPO_ROOT = Path(__file__).resolve().parent.parent
|
| 23 |
sys.path.insert(0, str(REPO_ROOT))
|
| 24 |
|
| 25 |
+
from usearchwiki import read_bin, write_bin # noqa: E402
|
| 26 |
|
| 27 |
|
| 28 |
def normalize_rows(matrix: np.ndarray) -> np.ndarray:
|
|
File without changes
|