refactor: extract bootstrap/AppBuilder from main.rs (M24) (#425)

* refactor: extract bootstrap/AppBuilder from main.rs (#393)

Move 16 initialization functions from main.rs into
crates/zeph-core/src/bootstrap.rs with AppBuilder struct.

AppBuilder::from_env() resolves config, vault, and secrets.
Build methods: build_provider(), build_memory(), build_skill_matcher(),
build_registry(), build_tool_executor(), build_watchers(),
build_shutdown(), build_summary_provider().

main.rs reduced from 2313 to 978 lines. Remaining: CLI parsing,
channel creation, TUI wiring, A2A server, agent run loop.

Add feature forwarding in zeph-core (candle, compatible, cuda, metal,
openai, orchestrator, qdrant, router). Add Clone+Copy to SecurityConfig
and TimeoutConfig.

Resolves #393

* fix: remove unused imports in main.rs tests

* docs: update architecture docs, changelog, readme for AppBuilder extraction

Author: bug-ops

CHANGELOG.md

@@ -25,6 +25,8 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.1.0/).
 - `full` feature flag enabling all optional features
 
 ### Changed
+- Extract bootstrap logic from main.rs into `zeph-core::bootstrap::AppBuilder` (#393): main.rs reduced from 2313 to 978 lines
+- `SecurityConfig` and `TimeoutConfig` gain `Clone + Copy`
 - `AnyChannel` moved from main.rs to zeph-channels crate
 - Default features reduced to minimal set (qdrant, self-learning, vault-age, compatible, index)
 - Skill matcher concurrency reduced from 50 to 20

Cargo.toml

@@ -106,15 +106,15 @@ repository.workspace = true
 default = ["compatible", "openai", "qdrant", "self-learning", "vault-age"]
 full = ["a2a", "compatible", "discord", "gateway", "index", "mcp", "openai", "orchestrator", "qdrant", "router", "self-learning", "slack", "tui", "vault-age"]
 a2a = ["dep:zeph-a2a", "zeph-a2a?/server"]
-compatible = ["zeph-llm/compatible"]
+compatible = ["zeph-llm/compatible", "zeph-core/compatible"]
 mcp = ["dep:zeph-mcp", "zeph-core/mcp"]
-qdrant = ["zeph-skills/qdrant", "zeph-mcp?/qdrant"]
-candle = ["zeph-llm/candle"]
-metal = ["zeph-llm/metal"]
-cuda = ["zeph-llm/cuda"]
-openai = ["zeph-llm/openai"]
-orchestrator = ["zeph-llm/orchestrator"]
-router = ["zeph-llm/router"]
+qdrant = ["zeph-skills/qdrant", "zeph-mcp?/qdrant", "zeph-core/qdrant"]
+candle = ["zeph-llm/candle", "zeph-core/candle"]
+metal = ["zeph-llm/metal", "zeph-core/metal"]
+cuda = ["zeph-llm/cuda", "zeph-core/cuda"]
+openai = ["zeph-llm/openai", "zeph-core/openai"]
+orchestrator = ["zeph-llm/orchestrator", "zeph-core/orchestrator"]
+router = ["zeph-llm/router", "zeph-core/router"]
 self-learning = ["zeph-core/self-learning"]
 tui = ["dep:zeph-tui"]
 discord = ["zeph-channels/discord"]

README.md

@@ -125,9 +125,9 @@ cargo build --release --features tui
 ## Architecture
 
 ```
-zeph (binary) — bootstrap, vault resolution (anyhow for top-level errors)
-├── zeph-core       — Agent split into 7 submodules (context, streaming, persistence,
-│                     learning, mcp, index), daemon supervisor, typed AgentError/ChannelError, config hot-reload
+zeph (binary) — thin CLI/channel dispatch (anyhow for top-level errors)
+├── zeph-core       — bootstrap/AppBuilder, Agent split into 7 submodules (context, streaming,
+│                     persistence, learning, mcp, index), daemon supervisor, typed AgentError/ChannelError, config hot-reload
 ├── zeph-llm        — LlmProvider: Ollama, Claude, OpenAI, Candle, Compatible, orchestrator,
 │                     RouterProvider, native tool_use (Claude/OpenAI), typed LlmError
 ├── zeph-skills     — SKILL.md parser, embedding matcher, hot-reload, self-learning, typed SkillError

crates/zeph-core/Cargo.toml

@@ -8,9 +8,17 @@ repository.workspace = true
 
 [features]
 default = []
+candle = ["zeph-llm/candle"]
+compatible = ["zeph-llm/compatible"]
+cuda = ["zeph-llm/cuda"]
+daemon = []
 index = ["dep:zeph-index"]
 mcp = ["dep:zeph-mcp"]
-daemon = []
+metal = ["zeph-llm/metal"]
+openai = ["zeph-llm/openai"]
+orchestrator = ["zeph-llm/orchestrator"]
+qdrant = ["zeph-skills/qdrant", "zeph-mcp?/qdrant"]
+router = ["zeph-llm/router"]
 self-learning = ["zeph-skills/self-learning"]
 vault-age = ["dep:age"]