fix: restore all removed bundled skills + fix skills sync system

- Restored 21 skills removed in commits 757d012 and 740dd92:
  accelerate, audiocraft, code-review, faiss, flash-attention, gguf,
  grpo-rl-training, guidance, llava, nemo-curator, obliteratus, peft,
  pytorch-fsdp, pytorch-lightning, simpo, slime, stable-diffusion,
  tensorrt-llm, torchtitan, trl-fine-tuning, whisper

- Rewrote sync_skills() with proper update semantics:
  * New skills (not in manifest): copied to user dir
  * Existing skills (in manifest + on disk): updated via hash comparison
  * User-deleted skills (in manifest, not on disk): respected, not re-added
  * Stale manifest entries (removed from bundled): cleaned from manifest

- Added sync_skills() to CLI startup (cmd_chat) and gateway startup
  (start_gateway) — previously only ran during 'hermes update'

- Updated cmd_update output to show new/updated/cleaned counts

- Rewrote tests: 20 tests covering manifest CRUD, dir hashing, fresh
  install, user deletion respect, update detection, stale cleanup, and
  name collision handling

75 bundled skills total. 2002 tests pass.

skills/mlops/faiss/references/index_types.md

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+# FAISS Index Types Guide
+
+Complete guide to choosing and using FAISS index types.
+
+## Index selection guide
+
+| Dataset Size | Index Type | Training | Accuracy | Speed |
+|--------------|------------|----------|----------|-------|
+| < 10K | Flat | No | 100% | Slow |
+| 10K-1M | IVF | Yes | 95-99% | Fast |
+| 1M-10M | HNSW | No | 99% | Fastest |
+| > 10M | IVF+PQ | Yes | 90-95% | Fast, low memory |
+
+## Flat indices (exact search)
+
+### IndexFlatL2 - L2 (Euclidean) distance
+
+```python
+import faiss
+import numpy as np
+
+d = 128  # Dimension
+index = faiss.IndexFlatL2(d)
+
+# Add vectors
+vectors = np.random.random((1000, d)).astype('float32')
+index.add(vectors)
+
+# Search
+k = 5
+query = np.random.random((1, d)).astype('float32')
+distances, indices = index.search(query, k)
+```
+
+**Use when:**
+- Dataset < 10,000 vectors
+- Need 100% accuracy
+- Serving as baseline
+
+### IndexFlatIP - Inner product (cosine similarity)
+
+```python
+# For cosine similarity, normalize vectors first
+import faiss
+
+d = 128
+index = faiss.IndexFlatIP(d)
+
+# Normalize vectors (required for cosine similarity)
+faiss.normalize_L2(vectors)
+index.add(vectors)
+
+# Search
+faiss.normalize_L2(query)
+distances, indices = index.search(query, k)
+```
+
+**Use when:**
+- Need cosine similarity
+- Recommendation systems
+- Text embeddings
+
+## IVF indices (inverted file)
+
+### IndexIVFFlat - Cluster-based search
+
+```python
+# Create quantizer
+quantizer = faiss.IndexFlatL2(d)
+
+# Create IVF index with 100 clusters
+nlist = 100  # Number of clusters
+index = faiss.IndexIVFFlat(quantizer, d, nlist)
+
+# Train on data (required!)
+index.train(vectors)
+
+# Add vectors
+index.add(vectors)
+
+# Search (nprobe = clusters to search)
+index.nprobe = 10  # Search 10 closest clusters
+distances, indices = index.search(query, k)
+```
+
+**Parameters:**
+- `nlist`: Number of clusters (√N to 4√N recommended)
+- `nprobe`: Clusters to search (1-nlist, higher = more accurate)
+
+**Use when:**
+- Dataset 10K-1M vectors
+- Need fast approximate search
+- Can afford training time
+
+### Tuning nprobe
+
+```python
+# Test different nprobe values
+for nprobe in [1, 5, 10, 20, 50]:
+    index.nprobe = nprobe
+    distances, indices = index.search(query, k)
+    # Measure recall/speed trade-off
+```
+
+**Guidelines:**
+- `nprobe=1`: Fastest, ~50% recall
+- `nprobe=10`: Good balance, ~95% recall
+- `nprobe=nlist`: Exact search (same as Flat)
+
+## HNSW indices (graph-based)
+
+### IndexHNSWFlat - Hierarchical NSW
+
+```python
+# HNSW index
+M = 32  # Number of connections per layer (16-64)
+index = faiss.IndexHNSWFlat(d, M)
+
+# Optional: Set ef_construction (build time parameter)
+index.hnsw.efConstruction = 40  # Higher = better quality, slower build
+
+# Add vectors (no training needed!)
+index.add(vectors)
+
+# Search
+index.hnsw.efSearch = 16  # Search time parameter
+distances, indices = index.search(query, k)
+```
+
+**Parameters:**
+- `M`: Connections per layer (16-64, default 32)
+- `efConstruction`: Build quality (40-200, higher = better)
+- `efSearch`: Search quality (16-512, higher = more accurate)
+
+**Use when:**
+- Need best quality approximate search
+- Can afford higher memory (more connections)
+- Dataset 1M-10M vectors
+
+## PQ indices (product quantization)
+
+### IndexPQ - Memory-efficient
+
+```python
+# PQ reduces memory by 16-32×
+m = 8   # Number of subquantizers (divides d)
+nbits = 8  # Bits per subquantizer
+
+index = faiss.IndexPQ(d, m, nbits)
+
+# Train (required!)
+index.train(vectors)
+
+# Add vectors
+index.add(vectors)
+
+# Search
+distances, indices = index.search(query, k)
+```
+
+**Parameters:**
+- `m`: Subquantizers (d must be divisible by m)
+- `nbits`: Bits per code (8 or 16)
+
+**Memory savings:**
+- Original: d × 4 bytes (float32)
+- PQ: m bytes
+- Compression ratio: 4d/m
+
+**Use when:**
+- Limited memory
+- Large datasets (> 10M vectors)
+- Can accept ~90-95% accuracy
+
+### IndexIVFPQ - IVF + PQ combined
+
+```python
+# Best for very large datasets
+nlist = 4096
+m = 8
+nbits = 8
+
+quantizer = faiss.IndexFlatL2(d)
+index = faiss.IndexIVFPQ(quantizer, d, nlist, m, nbits)
+
+# Train
+index.train(vectors)
+index.add(vectors)
+
+# Search
+index.nprobe = 32
+distances, indices = index.search(query, k)
+```
+
+**Use when:**
+- Dataset > 10M vectors
+- Need fast search + low memory
+- Can accept 90-95% accuracy
+
+## GPU indices
+
+### Single GPU
+
+```python
+import faiss
+
+# Create CPU index
+index_cpu = faiss.IndexFlatL2(d)
+
+# Move to GPU
+res = faiss.StandardGpuResources()  # GPU resources
+index_gpu = faiss.index_cpu_to_gpu(res, 0, index_cpu)  # GPU 0
+
+# Use normally
+index_gpu.add(vectors)
+distances, indices = index_gpu.search(query, k)
+```
+
+### Multi-GPU
+
+```python
+# Use all available GPUs
+index_gpu = faiss.index_cpu_to_all_gpus(index_cpu)
+
+# Or specific GPUs
+gpus = [0, 1, 2, 3]  # Use GPUs 0-3
+index_gpu = faiss.index_cpu_to_gpus_list(index_cpu, gpus)
+```
+
+**Speedup:**
+- Single GPU: 10-50× faster than CPU
+- Multi-GPU: Near-linear scaling
+
+## Index factory
+
+```python
+# Easy index creation with string descriptors
+index = faiss.index_factory(d, "IVF100,Flat")
+index = faiss.index_factory(d, "HNSW32")
+index = faiss.index_factory(d, "IVF4096,PQ8")
+
+# Train and use
+index.train(vectors)
+index.add(vectors)
+```
+
+**Common descriptors:**
+- `"Flat"`: Exact search
+- `"IVF100,Flat"`: IVF with 100 clusters
+- `"HNSW32"`: HNSW with M=32
+- `"IVF4096,PQ8"`: IVF + PQ compression
+
+## Performance comparison
+
+### Search speed (1M vectors, k=10)
+
+| Index | Build Time | Search Time | Memory | Recall |
+|-------|------------|-------------|--------|--------|
+| Flat | 0s | 50ms | 512 MB | 100% |
+| IVF100 | 5s | 2ms | 512 MB | 95% |
+| HNSW32 | 60s | 1ms | 1GB | 99% |
+| IVF4096+PQ8 | 30s | 3ms | 32 MB | 90% |
+
+*CPU (16 cores), 128-dim vectors*
+
+## Best practices
+
+1. **Start with Flat** - Baseline for comparison
+2. **Use IVF for medium datasets** - Good balance
+3. **Use HNSW for best quality** - If memory allows
+4. **Add PQ for memory savings** - Large datasets
+5. **GPU for > 100K vectors** - 10-50× speedup
+6. **Tune nprobe/efSearch** - Trade-off speed/accuracy
+7. **Train on representative data** - Better clustering
+8. **Save trained indices** - Avoid retraining
+
+## Resources
+
+- **Wiki**: https://github.com/facebookresearch/faiss/wiki
+- **Paper**: https://arxiv.org/abs/1702.08734