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2/3 Add the redesigned VeRO system (vero/)#45

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2/3 Add the redesigned VeRO system (vero/)#45
varunursekar wants to merge 31 commits into
pr1-legacy-relocatefrom
pr2-add-vero

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@varunursekar

@varunursekar varunursekar commented Jul 23, 2026

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Second of three stacked PRs splitting #41. Base: pr1-legacy-relocate.

Adds the v0.5 system at the repo root: vero/ (core + harbor eval sidecar, build compiler, runtime/observability), vero-tasks/, runs/. Root README points to legacy/. Pure adds (197 files) + README/.gitignore.

Review after 1/3. 3/3 adds harness-engineering-bench/ on top.

🤖 Generated with Claude Code

Greptile Summary

This PR adds the v0.5 VeRO system at the repo root: the vero/ core package (evaluation engine, budget ledger, candidate repository, runtime/W&B observability), the Harbor eval-sidecar and inference gateway, the build compiler, and the vero-tasks/ task framework, across 197 new files. It is the second of three stacked PRs.

  • Issues from the previous review are addressed: _safe_extract_tar now uses filter=\"data\", all three EvaluationEngine exception paths (CancelledError, ExecutionError, infrastructure failure) are shielded, and BudgetLedger.reserve/refund correctly propagate CancelledError through best-effort rollback. The max_proposals dead-branch validation guard is also fixed.
  • InferenceUsageStore._save() blocks the event loop on every reserve() and complete() call \u2014 a synchronous disk write inside async with self._lock. Under high concurrency this serializes all gateway coroutines behind two file writes per request. The analogous BudgetLedger uses asyncio.to_thread for the same pattern; aligning them would be the natural fix.
  • The docker-compose isolation is correct: the upstream API key is empty in the agent container and only propagated to the sidecar/gateway services.

Confidence Score: 5/5

Pure-add PR with no modifications to existing code; all issues flagged in the previous review have been addressed in this revision.

The only finding is a performance concern in the inference gateway synchronous disk I/O pattern, which does not affect correctness or security.

Files Needing Attention: vero/src/vero/harbor/inference.py — the synchronous _save() pattern inside the async lock is worth revisiting before this runs under high concurrency load.

Important Files Changed

Filename Overview
vero/src/vero/harbor/inference.py Credential-isolating, budgeted inference gateway proxy; synchronous _save() inside async lock is a latency concern under high concurrency
vero/src/vero/evaluation/engine.py Authorization, budget, and persistence boundary; previous CancelledError/shield issues have been addressed with asyncio.shield on all three exception paths
vero/src/vero/evaluation/budget.py Durable budget ledger; reserve() and refund() both have fully shielded rollback/write paths that preserve CancelledError propagation
vero/src/vero/harbor/build/compiler.py Harbor task compiler; _safe_extract_tar now uses filter=data matching the defensive posture of extract_harbor_session_archive
vero/src/vero/harbor/auth.py Admin token write uses atomic temp-file replacement with correct mode before rename, constant-time comparison via secrets.compare_digest
vero/src/vero/harbor/sidecar.py Transport-neutral evaluation frontend; admitted event is correctly set in all branches before the synchronous path unblocks
vero/src/vero/optimization/optimizer.py max_proposals negative-value guard now checked before the proposal_limit guard, fixing the dead validation branch from the previous review
vero/src/vero/harbor/session.py Session archive creation and extraction; symlinks recorded as metadata, filter=data on extraction, member validation guards against path traversal
vero/src/vero/harbor/transport.py Git-based candidate transport; ref resolution uses --end-of-options, hooks disabled, safe.directory set, object ID regex validated
vero/src/vero/evaluation/security.py Secret redaction sorted by length descending to prevent partial replacement, covers diagnostics, case input/output/traces, and artifacts

Reviews (18): Last reviewed commit: "Replace EvaluationModel with a shared St..." | Re-trigger Greptile

Introduce the v0.5 codebase: vero/ (core + harbor eval sidecar, build
compiler, runtime/observability), vero-tasks/, and runs/. Root README points
to legacy/ for the original-paper code.
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Review the following changes in direct dependencies. Learn more about Socket for GitHub.

Diff Package Supply Chain
Security
Vulnerability Quality Maintenance License
Addedpypi/​orjson@​3.11.910010010010070
Addedpypi/​wandb@​0.28.074100100100100
Addedpypi/​litellm@​1.92.074100100100100
Addedpypi/​openai@​2.46.090100100100100
Addedpypi/​pydantic@​2.13.4100100100100100
Addedpypi/​fastapi@​0.139.0100100100100100

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Comment thread vero/src/vero/optimization/optimizer.py Outdated
Comment thread vero/src/vero/harbor/build/compiler.py Outdated
varunursekar and others added 12 commits July 23, 2026 11:51
…back #1)

Addresses the 'baseline floor fails open' regression:
- baseline_floor now defaults to false. The floor gates a ship on a
  validation comparison while the reward is on the (possibly
  differently-distributed) target, so it is opt-in.
- Pin the fixed seed's score to avoid re-scoring it every run
  (reproducibility + one fewer eval): VerificationTarget.baseline_reward
  (per-target, post scale/offset) and VerificationSelection
  .baseline_selection_score (for the floor). Plumbed through the build
  config + compiler.
- Fail safe when the floor is on, unpinned, and the seed re-score can't be
  measured: ship nothing (NoCandidateError -> shipped=false + infra error)
  instead of shipping the best candidate unverified (the fail-open bug).

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
#1)

Add an admin-only way to generate the number to pin: CanonicalVerifier
.measure_baseline(replicates) admin-scores the fixed seed N times on the
selection partition and each target and returns per-key mean/stddev. Exposed
as POST /score/baseline and 'vero harbor score-baseline --replicates N'.
Reuses the existing admin scoring machinery.

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
…atten

The benchmark-config tests read harness-engineering-bench/ (a separate branch
in the stacked split), so skip them when it isn't checked out. Update the
paths for the candidates/ -> top-level flatten (all benchmarks are now
top-level siblings of gaia/).

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
min_aggregate_cases defaulted to 1 — a vacuous floor that let an agent read
held-out validation labels one case at a time via single-case aggregate
evals. Default to 5 in both the sidecar policy and the build AgentAccessSpec
so a build that omits it is safe rather than unfloored (shipped builds
already set 5 explicitly).

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
Re-enabling harness isolation broke the eval: 'uv run' as the unprivileged
harness got a fresh empty uv cache and couldn't resolve the candidate package
from it (No module named 'gaia_agent'), with no network to download at eval
time. Pre-warm /home/harness/.cache/uv from the build (root) cache in the
sidecar image, matching the UV_CACHE_DIR the backend sets for the harness user.

Also fixes a test regression from feedback #2: with the k-anonymity floor
defaulting to 5, the instruction now reads 'must include at least 5 cases'
rather than 'arbitrary subsets'.

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
…ack #8)

The mean-of-k recorded only score/n_attempts/n_scored, so an outage-diluted
cell (dead attempts zero-filled) was indistinguishable from a genuinely clean
low cell. Add n_dead_infra (dead-to-infrastructure attempts, classified via
the existing error taxonomy) and n_clean (the rest), so the split is visible
in the live metrics rather than only reconstructable from raw trial records.

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
- optimizer.run: validate self.max_proposals >= 0 before the proposal_limit
  guard, so the specific 'must be non-negative' error is reachable (was a
  dead branch that always tripped the generic message first).
- compiler._safe_extract_tar: extractall(filter='data') to strip device
  files / setuid bits and neutralize unsafe links, matching
  extract_harbor_session_archive (also silences the py3.14 deprecation).

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
A cold-start walkthrough of the harbor path: the three-container trust
boundary, a run end-to-end, the evaluation core, disclosure/selection, the
five security mechanisms, and a suggested outside-in review order keyed to
the source files.

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
Update harbor_requirement pin from harbor[modal]==0.18.0 to ==0.20.0
across the README and harbor tests. Remove the PYTHONPATH injection in
the harness eval launch: it was a no-op (uv strips PYTHONPATH from the
child env) and did not fix the "No module named <agent>" failure under
the dropped uid, so it and its test assertion are gone.

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
The candidate is checked out at <mktemp>/repository; `mktemp -d` makes
that parent 0700 root. The eval launch chowned the repository (and the
staging tree) to the harness user but not the mktemp parent, so once the
process dropped to harness it could not traverse into its own workspace
to resolve the editable candidate package's absolute path — every eval
(baseline included) failed with "No module named <agent>" while harbor
itself still loaded from the harness-owned cache.

Grant the harness user traversal on that parent (chmod o+x) alongside the
existing chowns. o+x suffices because run_as drops to the user's own
uid+gid, so it is "other" relative to the root-owned parent. The dir
holds only candidate code, so widening traversal leaks no trusted data.

Reproduced and fixed against the real compiled sidecar image with a
faithful user+group+extra_groups privilege drop: 0700 -> "No module
named gaia_agent"; 0701 -> import resolves.

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
Add a reachability probe: after chowning/granting traversal, run `test -r
<project_path>` as the dropped user before launching harbor. Readability
requires traversing every ancestor, so any provisioning gap (a missing
chown, a non-traversable parent) is caught here with a clear message
instead of resurfacing as a cryptic "No module named <agent>" several
retries downstream — which is exactly how the checkout-parent bug hid.

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
Extract the harness provisioning commands and reachability probe into
vero.harbor.isolation as a single source of truth, and have the eval
launch use them, so the runtime and the test can't drift.

Add tests/test_v05_harbor_isolation_container.py: inside a throwaway
Linux container it loads the real sandbox.py + isolation.py standalone
(stdlib-only, no install) and asserts, against the real uid/gid drop and
the real provisioning commands, that (1) a checkout under a 0700 mktemp
parent is unreachable to the dropped user when only the leaf is chowned
(the regression sentinel for the shipped bug), (2) it becomes reachable
after harness_grant_commands and the probe agrees, and (3) trusted
root-only state stays unreadable to the dropped user. Skips when no
docker daemon is available.

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
Comment thread vero/src/vero/evaluation/budget.py
varunursekar and others added 4 commits July 23, 2026 17:08
Agents don't know what "vero" is; every name they meet should say what it
holds. The workspace context directory is now .evals/ with results/ (was
evaluations/), tasks/ (was cases/), and plan.json (was evaluations.json).
Host-side paths (~/.vero, ./.vero/session) are operator-facing and unchanged.

Co-Authored-By: Claude Fable 5 <noreply@anthropic.com>
One well-named entry point over the .evals/ context — the new avatar of the
legacy VeroAgent's three structured tools. Runner subcommands (run/status/
result/submit) delegate to the sidecar client lazily; the viewers (list/show/
cases/trace/diff/plan/tasks) are unprivileged stdlib readers of the disclosure-
projected tree, with bounded, paginated, metadata-first output. The compiler
bakes skills/evals/SKILL.md into the optimizer workspace by default
(include_evals_skill), and the instruction template now teaches `evals`.

Co-Authored-By: Claude Fable 5 <noreply@anthropic.com>
min_aggregate_cases moves onto the core EvaluationAccessPolicy (omitted
resolves to 5 under aggregate disclosure, 1 otherwise) and the engine refuses
agent-chosen aggregate subsets below the floor after cost resolution, so the
protection holds on every path — programmatic API and local runs included —
not just compiled harbor deployments. The sidecar keeps its earlier check as
defense-in-depth and now passes the floor through its explicit authorization.

AgentAccessSpec.to_access_policy() is the single typed translation from build
spec to runtime policy; the compiler emits it nested in serve.json and
SidecarEvaluationPolicy holds it as `access`, replacing the hand-rolled flat
keys (disclosure/agent_evaluable/min_aggregate_cases/expose_case_resources)
that had to be kept in sync across three representations.

Co-Authored-By: Claude Fable 5 <noreply@anthropic.com>
The sidecar's context writer predates the .evals rename and had its own
literals: exposed task resources landed in .evals/cases/ (README, skill,
and instruction docs all say tasks/) and plan.json was never written in
the harbor topology, breaking the documented 'evals plan' first step.
Caught live in the first gaia run of the new stack.
Comment thread vero/src/vero/evaluation/budget.py Outdated
AgentContextDirectory now owns write_case_resources and
write_evaluation_plan; both WorkspaceContextManager and the sidecar
feed it ContextPlanEntry rows (policy, evaluation set, resolved
budget), so the tree layout can no longer drift between topologies.
Top-level names (results/, tasks/, candidates/, plan.json) are module
constants. Behavior note: case-resource exposure now keys on
expose_case_resources alone (which model validation already ties to
agent_visible); the sidecar previously also required agent_can_evaluate.
…ecar

The gateway now keeps a size-rotated JSONL log of every request it
proxies or denies (scope, attribution, model, status, latency, tokens,
and head+tail-truncated request/response bodies; SSE responses are
captured from the chunks already tapped for usage). On by default in
compiled tasks at /state/inference/requests with a 16KB per-body cap
(inference_gateway.log_requests / request_log_body_bytes).

The trusted sidecar - the only credential holder - mirrors the gateway
state into the existing W&B run: a poller logs per-scope usage series
(live optimizer producer-scope burn included) every 30s and ships
rotated log files as artifacts, sharing the sink step counter. At
finalize the gateway ledger and request log are copied into the
session's artifacts so /session/export preserves every
request-response, W&B or not.
The loader resolves an existing local task_source to an absolute path,
while the committed partition manifest records it relative to itself;
compare resolved locations before rejecting. Registry sources still
compare literally.
@shehabyasser-scale

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Really nice split. Breaking #41 into relocate-legacy / add-system / add-benchmarks makes it reviewable again (Greptile passes each now), keeps the old stack intact under legacy/, and reads as clean pure-adds. I went through the system tree closely against the legacy Harbor stack.

Two things I'd flagged on the earlier v0.5 snapshot are already handled here, thanks for that:

  • Baseline floor fails safe now (verifier.py:383, raises NoCandidateError if the seed can't be re-scored rather than shipping it unverified).
  • k-anonymity floor defaults to 5 (build/config.py:29, and resolved to 5 under AGGREGATE in evaluation/models.py:707).
  • The in-process .veroaccess ACL being gone is fine: it's replaced by the privilege-drop + root-owned session dir isolation. Might be worth a one-line note in the PR that this was intentional.

One integrity concern I'd want resolved before this is relied on for competitive selection:

Infra-classified cases are excluded from the aggregate rather than scored at failure_score. An all-dead "infrastructure" case returns CaseStatus.ERROR (backend.py:1083-1105, the comment there literally says "excluded from the aggregate") and is dropped from informative_scores, so the mean divides by the informative count only (backend.py:1324-1330). The transient-infra classification matches the candidate process's own exception type name + message against a regex allowlist (error_taxonomy.py:131-159: rate.?limit|...|time(?:d.?)?out|connection|...). Budget and auth are detected out of band (good), but transient-infra is not.

If a candidate-attributable failure can reach that path (a candidate that raises ConnectionError, or emits a "timeout"/"connection" message, on a hard case), that case drops out of its own denominator and inflates the mean over the rest. That's the one-sided-selection lever the legacy code deliberately kept off: legacy always zero-filled dead attempts and documented infra retry as trusted-candidate-only. Here there's no trusted-only gate and infrastructure_max_attempts defaults to 3 (on).

Could you confirm whether the routing prevents a candidate-raised exception from being classified transient-infra? If it doesn't, I think the fix is:

  1. Score candidate-attributable all-dead cases at failure_score (restore the zero-fill invariant); restrict exclusion to harness-produced signals (coverage gaps, gateway-ledger budget events).
  2. Default infrastructure_max_attempts to 1, and gate retry > 1 to trusted / finalization evaluations only.

One more (high), in scale-vero-tasks: a single non-finite metric poisons the whole report. runner.py:154 writes score/metrics unguarded, so a NaN/inf from one case makes vero reject the report and collapse the entire run to the failure value, discarding all per-case data. Suggest enforcing finiteness at the TaskResult boundary.

Smaller, non-blocking follow-ups:

  • Whole-run retry replaces rather than merges groups (backend.py:1222), so with aggregate_attempts: best it's a best-of-3 amplifier tripped by one missing task.
  • A candidate self-timeout is classed transient-infra and excluded (backend.py:1041-1044) instead of scored at failure_score.
  • The legacy operator ERROR alarm and the partly-zero-filled-mean WARNING are gone (raw n_dead_infra/n_clean counts survive as metrics, but there's no grep-able signal in the logs).
  • No per-case infra_retry audit marker, so a score that survived N re-rolls looks identical to a first-attempt score.
  • DGM / Evolutionary counters + seeded RNG reset on resume (strategy.py:241), silently shifting the search distribution.

Happy to pair on the aggregate/retry piece if that's useful.

The gateway now tracks provider cache reads (cached_input_tokens) per
scope and attribution. Each evaluation report carries its own
inference_requests/input/cached/output/total_tokens (from the gateway
ledger attribution keyed by evaluation id) plus per-case wall_seconds
and mean/max_case_wall_seconds from the Harbor trial timestamps.
finalize.json echoes the scoring evaluations' full metrics as
reward_metrics/baseline_reward_metrics; reward.json is untouched and
the score metric remains the sole objective input.

Budget-blind mode (disclose_budget: false) redacts inference_* metrics
from agent-facing receipts and context projections; latency stays
visible and trusted records keep everything.
Comment thread vero/src/vero/evaluation/engine.py
varunursekar and others added 4 commits July 24, 2026 13:44
…threading

Part A (always on): each case report carries agent-self-reported token
counts from harbor's agent_result (agent_reported_input/cached/output_
tokens) plus report-level sums, distinct from the trusted gateway-metered
inference_* metrics; budget-blind mode redacts both prefixes, now also at
the per-case level.

Part B (experimental, request_log.attribution, default off): the gateway
stamps each request-log record with a provider-agnostic conversation
thread_id - stateful responses chains inherit via previous_response_id,
stateless surfaces (chat completions, Anthropic Messages) group by a
first-user-message digest that ignores the system prompt. The attributor
is constructed only when flagged, every method is exception-swallowing,
and state is FIFO-bounded, so it can never affect proxying. Also tracks
cached_input_tokens per scope/attribution.
…o build litellm/pyo3

The v0.5 package (vero/pyproject.toml) declares requires-python = ">=3.11",
which is too permissive. `uv run` picks the newest installed interpreter
(e.g. Python 3.14). The transitive dependency litellm 1.92.0 (pulled via
scale-vero[optimize] -> openai-agents[litellm]) has a Rust/PyO3 core that
fails to build on Python 3.14:

    error: the configured Python interpreter version (3.14) is newer than
    PyO3's maximum supported version (3.13)

Repro on a machine whose default uv-managed Python is 3.14:

    cd vero
    uv run vero harbor run ...

uv resolves to Python 3.14 (satisfies >=3.11), then the litellm build fails
with the PyO3 error above. Pinning to <3.14 forces uv to select 3.11-3.13,
matching PyO3's max supported version. Change is limited to vero/pyproject.toml.

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
Add a `agent_env` build-config field and render it as harbor `--ae KEY=VALUE`
on the optimizer's `harbor run`, so env vars reach the optimizer agent's own
setup/install exec.

Root cause: `run_command` in vero/src/vero/harbor/cli.py builds the optimizer's
harbor command from a fixed list + `-m model` + the click `extra` passthrough
and never reads any per-run agent env. `extra_harbor_args` was the only
env-adjacent knob, but it is compiled solely into the eval sub-run
(compiler.py writes it into serve.json, consumed by backend.py), a different
`harbor run` with a different agent, so it never reaches the optimizer agent's
install shell. Harbor's `--ae/--agent-env` flag populates the agent's extra_env,
which harbor injects into the agent's setup/install exec via scoped_exec_env, so
rendering `--ae` here is the supported channel.

Motivation: there was no way to set e.g. UV_TOOL_BIN_DIR for the optimizer
agent's install on a non-root sandbox (so `uv tool install` doesn't try to
symlink into root-owned /usr/local/bin). Passing it via extra_harbor_args
silently did nothing.

`extra_harbor_args` is intentionally left unchanged to avoid overloading its
meaning (eval sub-run args).

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
The SimpleNamespace config stubs in test_v05_harbor_http.py predate #48's
agent_env field; run_command now reads config.agent_env, so give the
stubs the same defaulted-empty field the real HarborBuildConfig has.
Comment thread vero/src/vero/evaluation/engine.py
varunursekar and others added 4 commits July 24, 2026 15:16
Addresses greptile P1s on #45. In BudgetLedger.reserve/refund a failing
durable write (transient OSError) escaped at the shield-drain await and
swallowed the run's CancelledError, breaking structured cancellation and
leaving a reservation charged on disk. Both drains now catch the write
failure and re-raise the originating cancellation, chaining the write
error for diagnosis. In the engine, the EvaluationExecutionError handler
and the infrastructure-failure refund now wrap record+refund in
asyncio.shield like the EvaluationCancelledError handler, so a
cancellation racing cleanup cannot interrupt the refund and leak budget.
Addresses the competitive-selection integrity concern on #45. The
transient-infra category is detected from the candidate process's own
exception type/message, and excluded cases drop out of the aggregate
denominator — so a candidate emitting a timeout/connection error on a
hard case could inflate its mean, with whole-sub-run retry (default 3)
amplifying it under aggregate_attempts: best.

For competitive (agent) evaluations a within-trial transient-infra
result is now scored at the failure value (the zero-fill invariant), and
whole-sub-run infrastructure retry is disabled. Trusted finalization
re-scores — run by the operator, not gameable — keep the exclusion and
the configured retries. Genuinely harness-produced deadness stays
excluded for both: coverage gaps (no trial produced) and gateway-ledger
budget/auth (terminating, out of band). Default infrastructure_max_
attempts lowered to 1.
Both specs govern the fair-play boundary but neither said so. Give each a
docstring naming its role and fields: AgentAccessSpec is what the optimizer
may see and spend while searching a partition, VerificationTargetSpec is how
the trusted verifier finally scores the candidate that search picked.

Note that min_aggregate_cases is only consulted when disclosure is AGGREGATE;
under FULL the agent already sees every per-case result, so the floor is inert
there whatever it is set to.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
EvaluationModel was a BaseModel with extra="forbid" and nothing else, but its
name claimed an evaluation-contract scope it never had: WorkspaceOverlaySpec
and WandbSpec have nothing to do with evaluation. Worse, the build and runtime
layers imported it from vero.evaluation purely to inherit a config flag, which
made the evaluation package a dependency of code that otherwise has no reason
to touch it.

Move the base to vero/models.py as StrictModel, a dependency leaf importing
only pydantic, and rebase all 79 subclasses onto it. Fold in the 13 models that
hand-rolled the same ConfigDict (Candidate, SessionManifest, RuntimeEvent, the
session specs, and others), and drop it from WorkspaceOverlaySpec and
HarborBuildConfig, which were setting it redundantly on an already-strict base.

Strictness is the point and is unchanged: a typo'd key in a build YAML must
fail the build rather than be dropped in silence, leaving a default that
quietly widens the optimizer's access.

EvaluationModel is removed rather than aliased; it had no references outside
src/vero. Test results are identical to before the change.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
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