Taking RAG to the CPU: separating the data plane from the generation plane

Thu, 11 Jun 2026 03:20:00 +0000

Third piece in an operational series about squeezing a generic on-premise LLM cluster of 4×H100 SXM 80 GB. Its siblings: sharing one GPU between workloads (time-slicing, MPS, MIG) and serving several models on one GPU (swap + sleep) attack the split inside the GPU. This one attacks the split outside: which parts of RAG never need to touch the GPU at all. The closing piece of the series, the end-to-end sovereign assistant (fourth instalment, in preparation), assembles the complete system where these pieces fit together.

TL;DR

A RAG system is not one thing, it is three phases with opposing compute profiles, and putting them all on the GPU “because it is AI” is an allocation mistake. (1) Build/ingest, embedding the corpus and building the index, is batch, throughput-bound work with no latency SLA: its natural home is the CPU. (2) Query-time retrieval, embedding the query, HNSW search, RRF fusion, lightweight rerank, is mostly CPU, with caveats only for heavy reranking; vector search always ran on CPU, even in stacks sold as “GPU”. (3) Generation, the LLM producing the answer, is latency-bound, and there the GPU is irreplaceable: a 7B on CPU gives a time to first token of seconds, unacceptable for chat. The technical key to why (1) and (2) fit on CPU: the embedder is not an LLM. bge-m3 is around 568M parameters (an XLM-RoBERTa encoder), not 7B+; in int8 it occupies about 580 MB and activates fast integer compute paths (Intel AVX-512 + VNNI + AMX on 4th-gen Xeon and later; NEON SDOT/UDOT on ARM). The runtimes are ready: TEI with a CPU backend (same OpenAI API /v1/embeddings and /rerank), Qdrant’s fastembed (ONNX-CPU), bge-m3 in ONNX int8 with its three heads (dense/sparse/ColBERT). The Intel + Hugging Face blog post with Optimum Intel and fastRAG reports up to around 10× on indexing for BGE-large int8 on a 4th-gen Xeon (their benchmark figure, encoding-only; I quote it and qualify it below). The operational conclusion: separate the data plane (CPU) from the generation plane (GPU). In the 4×H100 cluster, no H100 should be spent re-indexing a corpus that changes once a day. That goes to the generic CPU fleet (Xeon AMX, NUCs), and the H100s are reserved for generation and, at most, for rerank peaks or large 7B embedders. What does not go down to CPU: interactive generation, massive reranking at high QPS, re-indexing with a strict real-time SLA, and 7B embedders (gte-Qwen2, NV-Embed).

The analogy: the library and the librarian

Picture a serious research library. There are three distinct jobs, done by different people, on different clocks.

The first is cataloguing. Boxes of new books arrive; someone opens them, classifies them, assigns a shelf mark, indexes them in the catalogue and puts them on the right shelf. It is patient background work, done at night or between other tasks. Nobody is standing over you with a stopwatch waiting for today’s batch to be catalogued: what matters is that tomorrow it is done and done well. It is pure throughput: how many books you catalogue per hour, not how long you take on one specific book. This is ingestion.

The second is handling an enquiry at the desk. A reader turns up and asks about a topic. The librarian goes to the catalogue, which already exists, finds half a dozen relevant shelf marks, fetches them and puts the books on the desk. It is fast, light, and consists of searching an index that already exists, not building it. This is retrieval.

The third is writing a reasoned report from those books. The reader, or an expert you commission, reads the six books, compares them, synthesises, and writes an argued answer with citations. This is slow, demands a very well-trained mind, and the reader is waiting: here there is a human stopwatch. This is generation, the LLM.

The moral is about staff allocation. You do not put your star writer, expensive, scarce, with a queue of people waiting for reports, to catalogue boxes of books at dawn. Cataloguing is done by a large, cheap team that works through the night without rushing. The star writer touches only what genuinely needs their mind: writing. In our system, the star writer is the H100, and cataloguing at dawn is corpus ingestion. Spending the H100 on re-indexing is exactly the error of putting the writer to work labelling boxes.

The rest of the post is, essentially, which parts of the library work the cheap CPU team can do (almost all of them) and which is irreducibly the GPU writer’s job (only the last one).

The three phases and their compute profiles

The confusion that GPU over-provisioning feeds on is treating “RAG” as a monolithic block that “uses AI, therefore goes on the GPU”. No. RAG is a data pipeline with a generative model plugged in at the end. The correct architectural boundary does not separate “what uses models” from “what does not”, because both sides use models, but throughput-bound from latency-bound, which is the same as separating the data plane from the generation plane.

Why ingestion fits on CPU: the embedder is not an LLM

The whole argument rests on a size asymmetry that gets overlooked. People hear “embeddings” and “generation” and put them in the same bag of “big models that need a GPU”. But the embedding encoder and the generative LLM are two orders of magnitude apart in parameters.

bge-m3, the reference multilingual embedder, is an XLM-RoBERTa of around 568M parameters (model card, paper arXiv:2402.03216). Its sibling reranker, bge-reranker-v2-m3, is built on the same base and lands at roughly the same 568M parameters (model card). Compare that with an entry-level generative LLM: a Llama 3.1 8B has around 14× more parameters, and the big production models sit at 70B+. A 568M encoder is, in compute budget terms, a different animal.

Two structural differences make that encoder comfortable on CPU:

It is an encoder, not an autoregressive decoder. It processes the whole sequence in a single forward pass and emits the vector. There is no token-by-token decode, no growing KV cache, none of the memory-bound generation phase that kills the CPU. It is a dense matrix pass and that is it.
It quantises to int8 with almost no loss. In int8, bge-m3 occupies on the order of 580 MB and, above all, activates the integer compute paths that a modern CPU executes quickly: matrix instructions such as Intel AMX (Advanced Matrix Extensions, 4th-generation Xeon and later), AVX-512 with VNNI (Vector Neural Network Instructions) on earlier Xeons, and NEON SDOT/UDOT on ARM. The quality loss from going FP32 to int8 on these models usually stays below 1% of retrieval recall, practically invisible (Intel + Hugging Face, CPU Optimized Embeddings).

Let us quantify the int8 size. For $P = 568 \times 10^6$ parameters at 1 byte each:

$$\text{size}_{\text{int8}} \approx 568 \times 10^6 \text{ params} \times 1 \text{ byte/param} \approx 568 \text{ MB}$$

In other words, the model fits in the cache and RAM of any server or NUC without blinking, and the bottleneck is integer compute, exactly what AMX/VNNI accelerate. There is nothing in this profile that asks for a GPU.

Runtimes that already do this effortlessly

Nothing needs inventing. The CPU ecosystem for the data plane is mature:

Text Embeddings Inference (TEI) from Hugging Face: a Rust server with CPU backends via ONNX Runtime (recommended) or Intel MKL, and OpenAI-compatible endpoints (/v1/embeddings) plus /rerank (TEI repo). That is, the data plane on CPU exposes exactly the same HTTP contract as a GPU server; the rest of the system never learns which silicon is behind it.
fastembed from Qdrant: a lightweight library that loads embedders on ONNX-CPU and generates dense, sparse and ColBERT vectors (fastembed repo). Designed from the start to run without a GPU.
bge-m3 in ONNX int8 with its three heads (dense / sparse-lexical / ColBERT multivector) exported and quantised, ready for ONNX Runtime CPU.

The Intel and Hugging Face figure that anchors viability: in their benchmark with Optimum Intel + fastRAG on a 4th-generation Xeon (8480+, 56 cores, 1 socket), the int8 variant of BGE-large reaches up to around 10× indexing throughput against FP32 (HF blog, Haystack/deepset). The small print needs reading, so I read it: that ~10× is encoding-only (tokenisation excluded), at sequence length 256, comparing int8 against FP32 on the same CPU. It is not “CPU 10× faster than GPU”, it is “int8 10× faster than FP32 on CPU”. It is still the relevant figure: it tells you that with quantisation the CPU goes from unworkable to perfectly useful for batch ingestion.

Viability table: CPU for each component?

This is the operational table. The column that matters is the caveat, because a bare “yes” or “no” lies.

Component	CPU viable?	Caveat
Chunking (slicing the corpus)	Yes, always	It is regex, parsing and windows; it never had anything to do with the GPU.
Ingest embedding `bge-m3` dense	Yes, its best case	Overnight batch, int8 + AMX/VNNI. This is exactly what the CPU shines at.
Sparse / SPLADE / BM25 head	Yes, CPU-native	Lexical work is pure inverted index; the GPU adds nothing here.
Building the HNSW index (Qdrant, pgvector)	Yes, always CPU	The HNSW graph build is CPU by design in these engines.
Query embedding (online)	Yes	A single short text; tens of ms on CPU, more than enough for chat.
Dense + sparse search + RRF	Yes	Vector search always ran on CPU, even in “GPU” stacks. RRF is sorting lists.
Cross-encoder reranker `bge-reranker-v2-m3` top-20/50	Yes, with care	A cross-encoder evaluates $k$ query-doc pairs: cost $\propto k$. Over 20-50 candidates it works; over hundreds at high QPS, no.
ColBERT late interaction	Marginal on CPU	The token-by-token matrix product of late interaction is heavy; viable at low volumes, suffers with QPS.
LLM generation	No, in practice	A 7B on CPU gives TTFT in seconds. Interactive latency = GPU.

Two rows deserve underlining because they dismantle myths.

“Vector search needs a GPU.” False from the start. The HNSW index, the navigable small-world graph used by Qdrant, pgvector with vector/halfvec, Milvus in CPU mode and almost everything else, was always built and traversed on CPU. Even the stacks advertised as “GPU-accelerated RAG” do the embedding on GPU but the ANN search stays on CPU in the vast majority of deployments; the GPU variants of the index (CAGRA and similar) are the expensive exception, not the norm, and are justified only with billions of vectors and extreme QPS. For a corporate corpus of millions of chunks, HNSW on CPU resolves in single-digit milliseconds.

“The reranker is a model, therefore GPU.” The bge-reranker-v2-m3 reranker is a cross-encoder of around 568M: it runs on CPU. The caveat is the number of pairs. A cross-encoder does not produce a reusable vector; it evaluates the (query, document) pair jointly, so its cost grows linearly with the number of candidates $k$:

$$\text{cost}_{\text{rerank}} \propto k \times \text{forward}(\text{query} + \text{doc})$$

Reranking the top-20 or top-50 coming out of hybrid retrieval is perfectly affordable on CPU. Reranking hundreds of candidates at high QPS is not: there the linear cost explodes and the GPU wins. The rule of thumb: broad cheap recall in the retriever, precision rerank over few candidates. (The detail of hybrid retrieval and reranking is in the fundamentals piece linked below.)

The numbers, with honest methodology

Here comes the part where a lot of people lie by omission. I am going to give throughput ranges, but they are literature ranges and orders of magnitude, not my own measurements on this hardware. Take them as such: the right decision does not depend on nailing the number, it depends on understanding the allocation.

For bge-m3 dense, sequence ≈256 tokens, embedding throughput moves roughly like this:

Platform	Dense throughput (order of magnitude)	Reading
High-end GPU (5090 fp16, TEI)	~12k tok/s+ (indicative)	The ceiling; expensive and scarce.
Large server CPU (Xeon ~56 cores, int8 ONNX)	low band of thousands tok/s	~1/5–1/10 of the GPU, but horizontally scalable and cheap.
Edge CPU / NUC (4-8 cores, int8)	tens to low hundreds tok/s	Enough for overnight ingestion of a local corpus.

The temptation is to read the second row as “CPU is 5-10× slower, discarded”. That is the wrong reading for ingestion. For batch work with no SLA, what rules is not absolute tok/s but throughput per euro and throughput per watt, and there the arithmetic changes sign.

Take a numerical example of allocation. Suppose a corpus of 2 million chunks of around 256 tokens that has to be re-indexed once a day (the corpus changes, the embeddings have to be redone). That is:

$$2 \times 10^6 \text{ chunks} \times 256 \text{ tok/chunk} \approx 5.1 \times 10^8 \text{ tokens}$$

At a conservative CPU throughput of, say, 3,000 tok/s per int8 Xeon server:

$$t_{\text{ingest}} \approx \frac{5.1 \times 10^8 \text{ tok}}{3000 \text{ tok/s}} \approx 1.7 \times 10^5 \text{ s} \approx 47 \text{ hours on a single server}$$

47 hours on one box sounds bad until you remember two things. First, this is embarrassingly parallel: the corpus is sliced and distributed; with 8 CPU servers it drops to around 6 hours, with 16 to around 3 hours, comfortably inside the overnight window. Second, and more importantly: that same work on the GPU blocks the GPU. If the H100 does 12k tok/s, it takes around 12 hours, but they are 12 hours of the H100, the resource the whole organisation fights over in order to generate. Spending the scarce, expensive resource on re-indexing a corpus that changes once a day is bad allocation, even if it is “faster”: you are optimising the wrong tok/s.

The mental rule: for ingestion, optimise throughput/€ and throughput/W; absolute tok/s belongs to the generation plane, where the human stopwatch really is running.

Decision tree: CPU or GPU for this piece?

Reference architecture (a): CPU-only

The first case is a node with no GPU: a NUC, an office Xeon, a sovereign edge server in a branch or in an air-gapped environment. The whole data plane lives there; generation is delegated to a remote GPU endpoint or done in batch with an SLM when latency is not pressing.

The stack:

TEI-CPU serving bge-m3 int8 with dense + sparse (same OpenAI contract /v1/embeddings, plus /rerank for the reranker).
Qdrant with a dense HNSW index plus sparse vectors, native RRF fusion.
Reranker bge-reranker-v2-m3 over the top-k (via TEI’s /rerank).
Gateway that orchestrates and, for generation, calls an external endpoint.

# docker-compose: full RAG data plane on CPU (no GPU)
services:
 tei-embed:
 image: ghcr.io/huggingface/text-embeddings-inference:cpu-latest
 command: ["--model-id", "BAAI/bge-m3", "--pooling", "cls", "--dtype", "int8"]
 ports: ["8081:80"]
 # ONNX/MKL backend: exploits AVX-512+VNNI / AMX if the Xeon supports it

 tei-rerank:
 image: ghcr.io/huggingface/text-embeddings-inference:cpu-latest
 command: ["--model-id", "BAAI/bge-reranker-v2-m3", "--dtype", "int8"]
 ports: ["8082:80"]
 # exposes /rerank — invoked ONLY over top-20/50, never over hundreds

 qdrant:
 image: qdrant/qdrant:latest
 ports: ["6333:6333"]
 volumes: ["./qdrant_storage:/qdrant/storage"]
 # HNSW dense + sparse vectors + RRF, all CPU

Hybrid search with RRF fusion in Qdrant (dense + sparse in a single query):

from qdrant_client import QdrantClient, models

client = QdrantClient(url="http://qdrant:6333")

# query embedding: dense and sparse from TEI-CPU (HTTP wiring omitted)
hits = client.query_points(
 collection_name="corpus",
 prefetch=[
 models.Prefetch(query=dense_vec, using="dense", limit=50),
 models.Prefetch(query=sparse_vec, using="sparse", limit=50),
 ],
 query=models.FusionQuery(fusion=models.Fusion.RRF), # native RRF
 limit=20,
).points
# -> then: POST /rerank (TEI) over these 20, keep the top-5
# -> then: the gateway sends query + top-5 to the GENERATION endpoint (GPU)

Generation, on this CPU-only node, leaves the node: the gateway builds the augmented prompt and sends it to a vLLM endpoint on the GPU cluster (or, if there is no interactive SLA, to an SLM on CPU in batch mode, accepting a TTFT of seconds). The entire data plane, everything above, runs without a single GPU.

Reference architecture (b): the recommended hybrid

This is the one I recommend for the general case with a GPU cluster available: data plane on CPU, generation plane on GPU, connected by OpenAI-compatible HTTP contracts so that each side is replaceable.

Generation server, minimal, on GPU:

# vLLM on the GPU cluster — generation ONLY
services:
 vllm-gen:
 image: vllm/vllm-openai:latest
 command: >
 --model meta-llama/Llama-3.1-8B-Instruct
 --dtype bfloat16 --max-model-len 8192
 --gpu-memory-utilization 0.85
 # exposes /v1/chat/completions — the gateway sends it query + the top-5 already retrieved
 deploy:
 resources:
 reservations:
 devices: [{driver: nvidia, count: 1, capabilities: [gpu]}]

The virtue of the design: because both sides speak the OpenAI contract over HTTP, the CPU data plane and the GPU generation plane scale separately and are replaceable. If tomorrow you want to move the rerank to GPU because QPS went up, you change one URL. If you want to add more CPU ingest nodes, you add them without touching generation. The whole stack is OSS and licence-clean: bge-m3 and bge-reranker-v2-m3 are MIT (bge-m3, reranker), Qdrant is Apache-2.0, TEI and vLLM are OSS.

Applied to the generic 4×H100 cluster

Let us bring this down to the cluster in the series: 4×H100 SXM 80 GB plus a generic CPU fleet (Xeon with AMX, NUCs). The correct allocation:

Build and indexing → CPU fleet. No H100 should spend a cycle re-embedding the corpus. That goes to the Xeon AMX machines (large servers, throughput in the thousands of tok/s in int8) or, for small local corpora, to the NUCs overnight. Overnight re-indexing of a corpus that changes once a day is the textbook case of “unhurried CPU work”.
The H100s → generation. All four cards are reserved for what only they do well: producing tokens at interactive latency. This is what the sibling pieces in the series, sharing a GPU and several models on one GPU, help to squeeze: once ingestion stops competing for the GPU, all the expensive silicon is free to generate and is shared better between models and tenants.
The H100s, at most, → rerank peaks or large embedders. If at some point you need a 7B embedder (gte-Qwen2, NV-Embed) for a domain where bge-m3 does not reach, or a massive rerank at a QPS the CPU cannot absorb, those peaks can indeed visit the GPU. But they are the occasional exception, not the base load.

The auditability angle: ENS / NIS2

There is a compliance argument that rarely gets mentioned and that the CPU/GPU split gives you almost for free.

A CPU-only node with no proprietary driver is easier to audit. There is no closed NVIDIA kernel stack, no CUDA and firmware versions to reconcile with the supply chain, no proprietary driver surface to document for an ENS or a NIS2 assessment. The whole data plane, chunking, embeddings, index, search, runs on OSS software on generic CPU with standard instructions. For a sovereign or classified environment, being able to say “the plane that touches the corpus depends on no proprietary binary” is a real argument, not marketing.

And there is a second auditability angle intrinsic to RAG done well: source traceability. A RAG system that retrieves identifiable chunks and cites them is auditable, since you can reconstruct which document each claim came from, as opposed to context-stuffing or the model’s opaque parametric knowledge, where there is no way to know where a fact came from. That traceability lives in the data plane (what was retrieved, from which source, with what score), precisely the plane we are putting on auditable CPU. The two arguments reinforce each other: the auditable silicon and the auditable chain of evidence are the same plane.

When NOT to take it to CPU

For honesty, and to avoid falling into the mirror image of the hype, the cases where CPU is not the answer:

Generation at interactive latency. The obvious case. A 7B on CPU gives TTFT in seconds: unacceptable for chat. If the user is waiting, generation goes to GPU. With no practical exceptions today.
Massive reranking at high QPS. A cross-encoder or ColBERT over hundreds of candidates, multiplied by many requests per second, saturates the CPU. The cost $\propto k \times \text{QPS}$ crosses the threshold where the GPU pays off. Keep CPU rerank bounded to top-20/50; if you need more breadth at higher QPS, move up to GPU.
Real-time re-indexing with a strict SLA. If the corpus changes continuously and freshness is measured in seconds (not hours), CPU throughput may not fit the window. There, ingest embedding may need a GPU, but note that this is rare: most corporate corpora change at the pace of hours or days, not seconds.
Large embedders (7B). bge-m3 (568M) is comfortable on CPU; a gte-Qwen2 or NV-Embed at 7B is LLM-class again and drags the same cost profile as generation. If your retrieval quality demands a 7B embedder, that embedder lives where 7Bs live: on the GPU.

The sentence that sums it all up: the CPU is the default home of the data plane; the GPU is the justified exception for what is latency-bound and massively online. Start by putting everything on CPU and move up to GPU only what proves it does not fit, not the other way round.

References

Chen, J., et al. BGE M3-Embedding: Multi-Lingual, Multi-Functionality, Multi-Granularity Text Embeddings. arXiv 2402.03216. https://arxiv.org/abs/2402.03216
BAAI — BGE-M3 model card (568M params, XLM-RoBERTa, 8192 tokens, MIT). https://huggingface.co/BAAI/bge-m3
BAAI — bge-reranker-v2-m3 model card (cross-encoder on top of bge-m3, ~568M). https://huggingface.co/BAAI/bge-reranker-v2-m3
Intel + Hugging Face — CPU Optimized Embeddings with Optimum Intel and fastRAG (~10× indexing for BGE-large int8, 4th-gen Xeon). https://huggingface.co/blog/intel-fast-embedding
deepset / Haystack — CPU-Optimized Embedding Models with fastRAG and Haystack. https://haystack.deepset.ai/blog/cpu-optimized-models-with-fastrag
Hugging Face — Text Embeddings Inference (TEI), CPU ONNX/MKL backends, OpenAI-compatible endpoints. https://github.com/huggingface/text-embeddings-inference
Qdrant — fastembed (ONNX-CPU, dense/sparse/ColBERT) and Hybrid Search with RRF. https://github.com/qdrant/fastembed · https://qdrant.tech/documentation/beginner-tutorials/hybrid-search-fastembed/

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