nds-mcp 0.1.0 → 0.2.0

package/README.md

@@ -2,89 +2,158 @@
 
 Nuclear Data Services MCP server — offline SQLite-backed nuclear physics data for AI agents.
 
-Provides 12 tools covering atomic masses (AME2020), nuclear properties (NUBASE2020), charge radii (IAEA + laser spectroscopy), energy levels and gamma transitions (ENSDF), and bibliographic references.
+Provides standard-mode tools covering atomic masses (AME2020), nuclear properties (NUBASE2020), charge radii (IAEA + laser spectroscopy), energy levels and gamma transitions (ENSDF), light nuclei resonance data (TUNL, A=3–20), bibliographic references, JENDL-5 decay/cross-section data, EXFOR experimental data, CODATA fundamental constants, update checks, plus discovery/query helpers (`nds_catalog`, `nds_schema`, `nds_query`).
 
 ## Quick Start
 
 ```bash
-npx nds-mcp
+npx -y nds-mcp
 ```
 
-The pre-built SQLite database (~85 MB) is automatically downloaded to `~/.nds-mcp/nds.sqlite` on first launch. No manual setup required.
+The pre-built SQLite database (~85 MB) is automatically downloaded to `~/.nds-mcp/nds.sqlite` on first launch.
+By default it downloads from this repo's GitHub Releases (override via `NDS_DB_DOWNLOAD_URL`).
+Release assets use a single compressed format: `*.sqlite.gz` (auto-decompressed after download).
+
+Optional tools `JENDL-5` / `EXFOR` use separate SQLite files and are auto-downloaded on demand.
+Maintainer ingest support also includes `FENDL-3.2c` and `IRDFF-II` optional SQLite files.
+`CODATA` is bundled inside `nds.sqlite`.
+
+## Databases
+
+| SQLite file | Default path | Download behavior | Includes |
+|-------------|--------------|-------------------|----------|
+| `nds.sqlite` | `~/.nds-mcp/nds.sqlite` | Auto-download on server startup *(required)* | AME2020 masses + reaction Q-values; NUBASE2020 nuclear properties; charge radii (IAEA + Li2021 laser spectroscopy); ENSDF (levels, gammas, decay feedings, references); TUNL light-nuclei resonance/level data (A=3–20); CODATA fundamental constants |
+| `jendl5.sqlite` *(optional)* | `~/.nds-mcp/jendl5.sqlite` | Auto-download on first call to JENDL-5 tools | JENDL-5 decay data + radiation spectra; JENDL-5 pointwise cross sections + ENDF-6 interpolation laws |
+| `exfor.sqlite` *(optional)* | `~/.nds-mcp/exfor.sqlite` | Auto-download on first call to EXFOR tools | EXFOR experimental data points (SIG/MACS/...) + per-entry metadata |
+| `fendl32c.sqlite` *(optional, maintainer ingest)* | `~/.nds-mcp/fendl32c.sqlite` | Built via `nds-mcp ingest --fendl` (status visible in `nds_info`) | FENDL-3.2c evaluated ENDF-6 data for transport applications (photo-atomic, neutron, proton, deuteron) + embedded upstream zip archives (raw ENDF retained for MF/MT beyond what is normalized into tables) |
+| `irdff2.sqlite` *(optional, maintainer ingest)* | `~/.nds-mcp/irdff2.sqlite` | Built via `nds-mcp ingest --irdff` (status visible in `nds_info`) | IRDFF-II evaluated ENDF-6 dosimetry neutron data + embedded upstream zip archives (raw ENDF retained for MF/MT beyond what is normalized into tables) |
+
+You can always bring your own files by setting `NDS_DB_PATH` / `NDS_JENDL5_DB_PATH` / `NDS_EXFOR_DB_PATH` / `NDS_FENDL_DB_PATH` / `NDS_IRDFF_DB_PATH`.
+
+## Glossary (Acronyms & Jargon)
+
+- **MCP**: Model Context Protocol (the tool interface used by agents/LLMs).
+- **IAEA**: International Atomic Energy Agency (many upstream nuclear-data sources and portals).
+- **AME2020**: Atomic Mass Evaluation 2020 (atomic masses, separation energies, Q-values).
+- **NUBASE2020**: Nuclear properties/decay evaluation (half-lives, spins, decay modes, isomers).
+- **ENSDF**: Evaluated Nuclear Structure Data File (levels, gamma transitions, decay feedings).
+- **TUNL**: Triangle Universities Nuclear Laboratory (light nuclei level/resonance tables, A=3–20).
+- **JENDL-5**: Japanese Evaluated Nuclear Data Library v5 (evaluated nuclear data).
+- **EXFOR**: Experimental Nuclear Reaction Data (experimental points + metadata).
+- **FENDL-3.2c**: Fusion Evaluated Nuclear Data Library (transport-focused evaluated ENDF-6 sets).
+- **IRDFF-II**: International Reactor Dosimetry and Fusion File (dosimetry-focused evaluated ENDF-6 sets).
+- **CODATA**: Recommended fundamental constants (Committee on Data for Science and Technology).
+- **ENDF-6**: *Evaluated Nuclear Data File* format (plain-text evaluated nuclear data, organized into sections).
+- **MAT / MF / MT**: ENDF section identifiers: **MAT** (material id), **MF** (“file number”, data category), **MT** (reaction/quantity id). Example: **MF=3** = pointwise cross sections; **MT=1** = total; **MT=2** = elastic; **MT=102** = (n,γ) capture.
+- **XS**: cross section.
+- **BLOB**: SQLite “binary large object” column storing raw bytes. This project embeds some upstream zip archives as BLOBs for completeness; `nds_query` never returns BLOBs and forbids selecting them.
+- **SIG / MACS**: EXFOR quantity codes: **SIG** = cross section; **MACS** = Maxwellian-averaged cross section.
+
+### Optional DB auto-download trigger
+
+- `jendl5.sqlite` is downloaded when calling `nds_get_radiation_spectrum`, `nds_list_available_targets`, `nds_get_reaction_info`, `nds_get_cross_section_table`, or `nds_interpolate_cross_section`.
+- `exfor.sqlite` is downloaded when calling `nds_search_exfor` or `nds_get_exfor_entry`.
+- These optional SQLite assets are published on this repo's GitHub Releases page (latest release assets).
+- Download URL can point to either plain `.sqlite` or compressed `.sqlite.gz`; server auto-gunzips when needed.
+- For maintainers, `jendl5.sqlite` should include both decay tables and XS tables (`jendl5_xs_meta` / `jendl5_xs_points` / `jendl5_xs_interp`) before release upload.
+
+## Install (Optional)
+
+Global install (lets you use `command: "nds-mcp"` in configs):
+
+```bash
+npm install -g nds-mcp
+nds-mcp
+```
+
+From source:
+
+```bash
+git clone https://github.com/fkguo/nds-mcp.git
+cd nds-mcp
+pnpm install
+pnpm build
+node dist/index.js
+```
 
 ## Configuration
 
-Most MCP clients use the same JSON format. The server runs via `npx` over stdio — no API key or network config needed.
+This is a **local stdio MCP server**. Launch options:
 
-### JSON config (Claude Desktop / Claude Code / Cursor / Cline / Cherry Studio / Chatbox ...)
+- `npx` (no install): `command: "npx"`, `args: ["-y", "nds-mcp"]`
+- global install: `command: "nds-mcp"`, `args: []`
 
-Add the following to your client's MCP config file:
+### Clients using `mcpServers` (same JSON)
+
+Claude Code (`./.mcp.json`), Cursor (`./.cursor/mcp.json` or `~/.cursor/mcp.json`), Cline (`cline_mcp_settings.json`),
+Kimi Code CLI (`~/.kimi/mcp.json`), Qwen Code CLI (`./.qwen/settings.json` or `~/.qwen/settings.json`).
 
 ```json
 {
   "mcpServers": {
     "nds-mcp": {
       "command": "npx",
-      "args": ["nds-mcp"]
+      "args": ["-y", "nds-mcp"],
+      "env": {}
     }
   }
 }
 ```
 
-| Client | Config location |
-|--------|-----------------|
-| Claude Desktop | `claude_desktop_config.json` |
-| Claude Code | `.mcp.json` (project) or `~/.claude/mcp.json` (global) |
-| Cursor | Settings → MCP → + Add new MCP server |
-| Cherry Studio | Settings → MCP Servers → + Add |
-| Chatbox | Settings → MCP → + Add |
-
 ### VS Code (Copilot)
 
-VS Code uses a slightly different key. Add to `.vscode/settings.json`:
+VS Code uses `.vscode/mcp.json` and a `servers` key:
 
 ```json
 {
-  "mcp": {
-    "servers": {
-      "nds-mcp": {
-        "command": "npx",
-        "args": ["nds-mcp"]
-      }
+  "servers": {
+    "nds-mcp": {
+      "command": "npx",
+      "args": ["-y", "nds-mcp"]
     }
   }
 }
 ```
 
-### Codex CLI (OpenAI)
+### Codex CLI
 
 Add to `~/.codex/config.toml`:
 
 ```toml
 [mcp_servers.nds-mcp]
 command = "npx"
-args = ["nds-mcp"]
+args = ["-y", "nds-mcp"]
 ```
 
 ### OpenCode
 
-Add to `opencode.json`:
+Add to `opencode.json` (project) or `~/.config/opencode/opencode.json` (global):
 
 ```json
 {
   "mcp": {
     "nds-mcp": {
-      "command": "npx",
-      "args": ["nds-mcp"]
+      "type": "local",
+      "command": ["npx", "-y", "nds-mcp"],
+      "enabled": true,
+      "environment": {}
     }
   }
 }
 ```
 
-### Generic stdio
+### Cherry Studio
+
+Settings → MCP Server → Add server:
+
+- Type: `STDIO`
+- Command: `npx`
+- Parameters: `-y nds-mcp`
+
+### Generic stdio (manual)
 
 ```bash
-npx nds-mcp
+npx -y nds-mcp
 ```
 
 The server communicates over stdin/stdout (MCP protocol). Diagnostic messages go to stderr.
@@ -98,88 +167,219 @@ The server communicates over stdin/stdout (MCP protocol). Diagnostic messages go
 | IAEA (Angeli & Marinova 2013) | `charge_radii` | RMS charge radii |
 | Li et al. 2021 | `laser_radii`, `laser_radii_refs` | Laser spectroscopy charge radii with per-isotope references |
 | ENSDF | `ensdf_levels`, `ensdf_gammas`, `ensdf_decay_feedings`, `ensdf_datasets`, `ensdf_references` | Nuclear structure: levels, gamma transitions, decay feedings |
+| TUNL | `tunl_levels` | Light nuclei (A=3–20) energy levels, resonance widths, isospin, decay modes (59 nuclides, 2512 levels) |
+| JENDL-5 Decay *(optional, `jendl5.sqlite`)* | `jendl5_decays`, `jendl5_decay_modes`, `jendl5_radiation` | Decay data + radiation spectra |
+| JENDL-5 XS *(optional, `jendl5.sqlite`)* | `jendl5_xs_meta`, `jendl5_xs_points`, `jendl5_xs_interp` | Pointwise cross sections + ENDF-6 interpolation laws |
+| EXFOR *(optional, `exfor.sqlite`)* | `exfor_entries`, `exfor_points` | Experimental data points (SIG/MACS/...) |
+| CODATA 2022 | `codata_constants`, `codata_meta` | Fundamental constants (value/uncertainty/unit, exact/truncated flags) |
+
+## Masses, Thresholds, and Near-Threshold Resonances (Important)
+
+- `nds_get_mass` returns **AME atomic masses** (neutral atoms; electrons included). This is standard: many Q-values/threshold
+  computations can be done directly with atomic masses because electron masses largely cancel for reactions with the same total Z.
+- If you need **nuclear masses**, convert via `M_nuc = M_atom - Z*m_e + B_e/c^2` (electron binding energies `B_e` are eV-scale for
+  light nuclei; include them only if you need sub-keV precision).
+- For **unbound nuclei / broad resonances** (e.g. `5He`, `5Li`), a single real-number “ground-state energy/mass” depends on the
+  *resonance-parameter convention* (S-matrix pole vs eigenphase centroid vs cross-section peak). Mixing AME masses with level
+  energies from ENSDF/TUNL/evaluations can yield O(10–100 keV) shifts and even “threshold-above vs threshold-below” sign flips.
+  When doing threshold comparisons for such systems, use a single self-consistent evaluation/convention.
 
 ## Tools
 
 | Tool | Description |
 |------|-------------|
-| `nds_info` | Database metadata: data versions, nuclide counts, file hash |
+| `nds_info` | Database metadata: data versions, nuclide counts, file hash, optional DB status, and build/source metadata |
+| `nds_catalog` | Catalog installed libraries and query entrypoints (what exists, where to query, and which tools to use) |
+| `nds_schema` | Inspect SQLite schema for an installed library (tables/columns/foreign keys; indexes optional) |
+| `nds_query` | Safe structured table query builder (filter/sort/paginate; no raw SQL). Enforces BLOB exclusion + `*_points` guardrails |
+| `nds_list_raw_archives` | List embedded upstream ENDF-6 zip archive metadata for FENDL/IRDFF (never returns BLOB payloads) |
+| `nds_check_update` | Check npm registry for newer `nds-mcp` version (read-only; no update performed) |
 | `nds_find_nuclide` | Find nuclides by element, Z, and/or A (NUBASE2020) |
 | `nds_get_mass` | Atomic mass data: mass excess, binding energy/A, atomic mass (AME2020) |
 | `nds_get_separation_energy` | Nucleon separation energies: Sn, Sp, S2n, S2p (AME2020) |
 | `nds_get_q_value` | Reaction Q-values: Qa, Q2bm, Qep, Qbn, etc. (AME2020) |
 | `nds_get_decay` | Decay info: half-life, spin/parity, decay modes (NUBASE2020) |
-| `nds_get_charge_radius` | Nuclear charge radii with laser spectroscopy provenance |
+| `nds_get_charge_radius` | Nuclear charge radii with cross-source comparison (`mode=best|all|compare`) |
 | `nds_search` | Search nuclides by property range (half-life, mass excess) |
-| `nds_query_levels` | Nuclear energy levels from ENSDF |
+| `nds_query_levels` | Nuclear energy levels from ENSDF + TUNL (auto-merged for A ≤ 20, with `source` discriminator) |
 | `nds_query_gammas` | Gamma-ray transitions from ENSDF |
 | `nds_query_decay_feedings` | Beta/EC decay feeding patterns from ENSDF |
 | `nds_lookup_reference` | ENSDF/NSR bibliographic references |
+| `nds_get_radiation_spectrum` | JENDL-5 decay radiation spectra (discrete lines + continuous summaries) |
+| `nds_list_available_targets` | List available JENDL-5 XS targets (A/state) for a given Z/projectile |
+| `nds_get_reaction_info` | List available JENDL-5 reaction channels for one target (mt/reaction/e-range/point-count) |
+| `nds_get_cross_section_table` | JENDL-5 cross-section tables (`mode=raw|sampled`) |
+| `nds_interpolate_cross_section` | ENDF-6 NBT/INT interpolation at one incident energy |
+| `nds_search_exfor` | Search EXFOR data points (supports `quantity=SIG|MACS|...`) |
+| `nds_get_exfor_entry` | Load full EXFOR entry payload by `entry_id` |
+| `nds_get_constant` | Get one CODATA fundamental constant by name |
+| `nds_list_constants` | List CODATA constants with filter and pagination |
+
+## Universal Query (Schema + Structured Queries)
+
+Use `nds_schema` to discover tables/columns, then `nds_query` to query them safely.
+
+Safety rules enforced by `nds_query`:
+
+- BLOB columns are never returned and cannot be explicitly selected (e.g. raw archive `content` fields).
+- For big `*_points` tables, you must include a high-selectivity equality filter:
+  - `where.eq.xs_id` (evaluated XS tables), or
+  - `where.eq.entry_id` (EXFOR points)
+- For embedded raw archives tables, you can query metadata columns (e.g. `rel_path`, `sha256`, `size_bytes`) but not the BLOB payload itself.
+  - For convenience, use `nds_list_raw_archives` to list raw-archive metadata (FENDL/IRDFF) without dealing with table names.
+
+## Cross-Source Rule
+
+For the same physical observable that exists in multiple sources/databases, tools return source-tagged values from each source by default. Any `recommended` / `best` value is an additional field and does not replace or hide other source values.
+
+## Example: Charge Radii (new source-tagged output)
+
+Use `mode=compare` to get all source-tagged values plus an explicit comparison summary:
+
+```json
+[
+  {
+    "Z": 4,
+    "A": 10,
+    "mode": "compare",
+    "source_values": [
+      {
+        "source_name": "Li et al. laser spectroscopy",
+        "value_fm": 2.355,
+        "uncertainty_fm": 0.017,
+        "unit": "fm"
+      },
+      {
+        "source_name": "IAEA charge radii",
+        "value_fm": 2.355,
+        "uncertainty_fm": 0.017,
+        "unit": "fm"
+      }
+    ],
+    "recommended_source": "Li et al. laser spectroscopy",
+    "recommended_r_charge_fm": 2.355,
+    "recommended_r_charge_unc_fm": 0.017,
+    "max_source_diff_fm": 0
+  }
+]
+```
+
+This reflects the current cross-source contract: return source-tagged values by default, and keep `recommended`/`best` as an additional field.
+
+## Example: JENDL-5 Pb-208 `n,gamma`
+
+Raw points table:
 
-## Example: Charge Radii from H to O-16
-
-Query charge radii for light nuclei (Z = 1–8, A ≤ 16), with original measurement references where available from laser spectroscopy data:
-
-| Nuclide | Z | A | r_charge (fm) | unc (fm) | Source | Reference |
-|---------|---|---|:---:|:---:|--------|-----------|
-| ¹H  | 1 | 1  | 0.8783 | 0.0086 | IAEA | — |
-| ²H  | 1 | 2  | 2.1421 | 0.0088 | IAEA | — |
-| ³H  | 1 | 3  | 1.7591 | 0.0363 | IAEA | — |
-| ³He | 2 | 3  | 1.9661 | 0.0030 | IAEA | — |
-| ⁴He | 2 | 4  | 1.6755 | 0.0028 | IAEA | — |
-| ⁶He | 2 | 6  | 2.066  | 0.0111 | IAEA | — |
-| ⁸He | 2 | 8  | 1.9239 | 0.0306 | IAEA | — |
-| ⁶Li | 3 | 6  | 2.589  | 0.039  | IAEA | — |
-| ⁷Li | 3 | 7  | 2.444  | 0.042  | IAEA | — |
-| ⁸Li | 3 | 8  | 2.339  | 0.044  | IAEA | — |
-| ⁹Li | 3 | 9  | 2.245  | 0.046  | IAEA | — |
-| ¹¹Li| 3 | 11 | 2.482  | 0.043  | IAEA | — |
-| ⁷Be | 4 | 7  | 2.646  | 0.016  | IAEA + Laser | Krieger et al., PRL 108 (2012) 142501 |
-| ⁹Be | 4 | 9  | 2.519  | 0.012  | IAEA + Laser | Krieger et al., PRL 108 (2012) 142501 |
-| ¹⁰Be | 4 | 10 | 2.355 | 0.017  | IAEA + Laser | Krieger et al., PRL 108 (2012) 142501 |
-| ¹¹Be | 4 | 11 | 2.463 | 0.015  | IAEA + Laser | Krieger et al., PRL 108 (2012) 142501 |
-| ¹²Be | 4 | 12 | 2.5031| 0.0157 | Laser only | Krieger et al., PRL 108 (2012) 142501 |
-| ¹⁰B | 5 | 10 | 2.4277 | 0.0499 | IAEA | — |
-| ¹¹B | 5 | 11 | 2.406  | 0.0294 | IAEA | — |
-| ¹²C | 6 | 12 | 2.4702 | 0.0022 | IAEA | — |
-| ¹³C | 6 | 13 | 2.4614 | 0.0034 | IAEA | — |
-| ¹⁴C | 6 | 14 | 2.5025 | 0.0087 | IAEA | — |
-| ¹⁴N | 7 | 14 | 2.5582 | 0.0070 | IAEA | — |
-| ¹⁵N | 7 | 15 | 2.6058 | 0.0080 | IAEA | — |
-| ¹⁶O | 8 | 16 | 2.6991 | 0.0052 | IAEA | — |
-
-**Notes:**
-- **IAEA** = Angeli & Marinova, At. Data Nucl. Data Tables 99 (2013) 69
-- **Laser** = Li et al. 2021 compilation of laser spectroscopy charge radii, with per-isotope original measurement references
-- Only **Be isotopes** in this range have laser spectroscopy data (all from Krieger et al. 2012)
-- **¹²Be** has no IAEA entry; its radius comes exclusively from laser spectroscopy
-- Short-lived halo nuclei (⁶He, ⁸He, ¹¹Li) have larger uncertainties from indirect methods
+```json
+{
+  "tool": "nds_get_cross_section_table",
+  "args": {
+    "Z": 82,
+    "A": 208,
+    "projectile": "n",
+    "mt": 102,
+    "mode": "raw",
+    "limit": 20
+  }
+}
+```
+
+Single-energy interpolation:
+
+```json
+{
+  "tool": "nds_interpolate_cross_section",
+  "args": {
+    "Z": 82,
+    "A": 208,
+    "projectile": "n",
+    "mt": 102,
+    "energy_eV": 0.0253
+  }
+}
+```
+
+Optional clamped interpolation (instead of out-of-range error):
+
+```json
+{
+  "tool": "nds_interpolate_cross_section",
+  "args": {
+    "Z": 82,
+    "A": 208,
+    "projectile": "n",
+    "mt": 102,
+    "energy_eV": 1000000000000,
+    "on_out_of_range": "clamp"
+  }
+}
+```
+
+Reaction channel discovery for one target:
+
+```json
+{
+  "tool": "nds_get_reaction_info",
+  "args": {
+    "Z": 82,
+    "A": 208,
+    "state": 0,
+    "projectile": "n"
+  }
+}
+```
+
+If requested `mt`/`reaction` is absent for the nuclide, the server returns `INVALID_PARAMS` with `available_mts` and `available_reactions`.
+If `Z` exists but requested `A/state` has no XS rows, server returns `INVALID_PARAMS` with `available_targets` (instead of generic not-found).
+For common naming confusion (e.g., Li-6 `n,a` vs ENDF/JENDL `n,t` MT=105), error payload may include `suggested_reaction`.
+`nds_interpolate_cross_section` defaults to `on_out_of_range="error"` (current behavior). With `on_out_of_range="clamp"`, response includes `clamped`, `requested_energy_eV`, `effective_energy_eV`, `tabulated_e_min_eV`, and `tabulated_e_max_eV`.
+For `nds_search_exfor` INVALID_PARAMS, payload includes structured guidance: parameter dependency/mutual-exclusion rules, copyable example calls, and `available_for_Z` overview (`projectiles`/`quantities`/`A_values`) when available.
+Cross-section responses include explicit context fields: `energy_unit="eV"`, `cross_section_unit="b"`, `jendl5_xs_version`.
+Cross-section responses also include both `mt` (ENDF MT number) and a human-meaningful `reaction` label plus `reaction_description`
+so users/agents don't need to memorize MT codes.
 
 ## Environment Variables
 
 | Variable | Default | Description |
 |----------|---------|-------------|
 | `NDS_DB_PATH` | `~/.nds-mcp/nds.sqlite` | Database path. Set to skip auto-download. |
+| `NDS_JENDL5_DB_PATH` | `~/.nds-mcp/jendl5.sqlite` | Optional JENDL-5 database path (auto-downloaded on first use if unset). |
+| `NDS_JENDL5_DB_DOWNLOAD_URL` | GitHub Releases latest | Override auto-download URL for `jendl5.sqlite`. |
+| `NDS_EXFOR_DB_PATH` | `~/.nds-mcp/exfor.sqlite` | Optional EXFOR database path (auto-downloaded on first use if unset). |
+| `NDS_EXFOR_DB_DOWNLOAD_URL` | GitHub Releases latest | Override auto-download URL for `exfor.sqlite`. |
+| `NDS_FENDL_DB_PATH` | `~/.nds-mcp/fendl32c.sqlite` | Optional FENDL-3.2c DB path (maintainer ingest / status in `nds_info`). |
+| `NDS_FENDL_DB_DOWNLOAD_URL` | GitHub Releases latest | Override auto-download URL for `fendl32c.sqlite`. |
+| `NDS_IRDFF_DB_PATH` | `~/.nds-mcp/irdff2.sqlite` | Optional IRDFF-II DB path (maintainer ingest / status in `nds_info`). |
+| `NDS_IRDFF_DB_DOWNLOAD_URL` | GitHub Releases latest | Override auto-download URL for `irdff2.sqlite`. |
 | `NDS_DB_DOWNLOAD_URL` | GitHub Releases latest | Custom download URL for the SQLite file. |
-| `NDS_TOOL_MODE` | `standard` | Set to `full` to expose all tools. |
 
 ## Building the Database from Source
 
-If you want to rebuild the database from raw data files:
+Maintainer-only: MCP clients never call these commands.
+
+See `RUNBOOK.md` (repo only) for full SOP and raw input requirements. Minimal JENDL-5 build:
 
 ```bash
-pnpm run ingest -- --data-dir /path/to/raw --output /path/to/nds.sqlite
+# Decay sublibrary
+scripts/download-jendl5-dec.sh ~/.nds-mcp/raw/jendl5-dec_upd5.tar.gz
+pnpm run ingest:jendl5-dec -- --source ~/.nds-mcp/raw/jendl5-dec_upd5.tar.gz --output ~/.nds-mcp/jendl5.sqlite
+
+# Neutron pointwise XS sublibrary (300K, full archive)
+scripts/download-jendl5-xs.sh ~/.nds-mcp/raw/jendl5-n-300K.tar.gz
+pnpm run ingest:jendl5-xs -- --source ~/.nds-mcp/raw/jendl5-n-300K.tar.gz --output ~/.nds-mcp/jendl5.sqlite
 ```
 
-Raw data files needed in `--data-dir`:
-- `mass_1.mas20` — AME2020 mass table
-- `rct1.mas20`, `rct2_1.mas20` — AME2020 reaction energies
-- `nubase_4.mas20` — NUBASE2020 nuclear properties
-- `charge_radii.csv` — IAEA charge radii
-- `laser_radii/Radii.tex` — Li et al. 2021 laser spectroscopy radii
-- `ensdf/ensdf.001` ... `ensdf.294` — ENSDF data files
+`--jendl5-xs` accepts tar/tgz/zip archives, extracted directories, single ENDF text files (`.dat` / `.endf` / `.txt`, including `.gz`), and json/jsonl sources.
+Zip extraction uses system `unzip`; install it on hosts that run ingest jobs.
+
+Release upload flow for optional DBs:
+
+```bash
+scripts/check-db.sh --only main,jendl5
+scripts/release-phase2-dbs.sh --tag <tag> --repo fkguo/nds-mcp --jendl5 ~/.nds-mcp/jendl5.sqlite
+```
 
-Download AME/NUBASE from https://www-nds.iaea.org/amdc/.
+Rule: build sqlite first, verify it locally, then upload release asset.
 
 ## License
 

package/bin/nds-mcp.js

@@ -12,7 +12,7 @@ const distEntry = path.resolve(__dirname, '..', 'dist', 'index.js');
 
 if (!existsSync(distEntry)) {
   console.error(`[nds-mcp] Build output missing: ${distEntry}`);
-  console.error('[nds-mcp] Run: pnpm -C packages/nds-mcp build');
+  console.error('[nds-mcp] Run: pnpm build');
   process.exitCode = 1;
   process.exit();
 }

package/dist/constants.d.ts

@@ -6,9 +6,25 @@ export declare const NDS_GET_DECAY: "nds_get_decay";
 export declare const NDS_GET_CHARGE_RADIUS: "nds_get_charge_radius";
 export declare const NDS_SEARCH: "nds_search";
 export declare const NDS_INFO: "nds_info";
+export declare const NDS_CATALOG: "nds_catalog";
+export declare const NDS_SCHEMA: "nds_schema";
+export declare const NDS_QUERY: "nds_query";
+export declare const NDS_LIST_RAW_ARCHIVES: "nds_list_raw_archives";
+export declare const NDS_CHECK_UPDATE: "nds_check_update";
+export declare const NDS_SELF_UPDATE: "nds_self_update";
 export declare const NDS_QUERY_LEVELS: "nds_query_levels";
 export declare const NDS_QUERY_GAMMAS: "nds_query_gammas";
 export declare const NDS_QUERY_DECAY_FEEDINGS: "nds_query_decay_feedings";
 export declare const NDS_LOOKUP_REFERENCE: "nds_lookup_reference";
-export type NdsToolName = typeof NDS_FIND_NUCLIDE | typeof NDS_GET_MASS | typeof NDS_GET_SEPARATION_ENERGY | typeof NDS_GET_Q_VALUE | typeof NDS_GET_DECAY | typeof NDS_GET_CHARGE_RADIUS | typeof NDS_SEARCH | typeof NDS_INFO | typeof NDS_QUERY_LEVELS | typeof NDS_QUERY_GAMMAS | typeof NDS_QUERY_DECAY_FEEDINGS | typeof NDS_LOOKUP_REFERENCE;
+export declare const NDS_GET_RADIATION_SPECTRUM: "nds_get_radiation_spectrum";
+export declare const NDS_LIST_AVAILABLE_TARGETS: "nds_list_available_targets";
+export declare const NDS_GET_REACTION_INFO: "nds_get_reaction_info";
+export declare const NDS_GET_CROSS_SECTION_TABLE: "nds_get_cross_section_table";
+export declare const NDS_INTERPOLATE_CROSS_SECTION: "nds_interpolate_cross_section";
+export declare const NDS_SEARCH_EXFOR: "nds_search_exfor";
+export declare const NDS_GET_EXFOR_ENTRY: "nds_get_exfor_entry";
+export declare const NDS_GET_CONSTANT: "nds_get_constant";
+export declare const NDS_LIST_CONSTANTS: "nds_list_constants";
+export declare const NDS_GET_DDEP_DECAY: "nds_get_ddep_decay";
+export type NdsToolName = typeof NDS_FIND_NUCLIDE | typeof NDS_GET_MASS | typeof NDS_GET_SEPARATION_ENERGY | typeof NDS_GET_Q_VALUE | typeof NDS_GET_DECAY | typeof NDS_GET_CHARGE_RADIUS | typeof NDS_SEARCH | typeof NDS_INFO | typeof NDS_CATALOG | typeof NDS_SCHEMA | typeof NDS_QUERY | typeof NDS_LIST_RAW_ARCHIVES | typeof NDS_CHECK_UPDATE | typeof NDS_SELF_UPDATE | typeof NDS_QUERY_LEVELS | typeof NDS_QUERY_GAMMAS | typeof NDS_QUERY_DECAY_FEEDINGS | typeof NDS_LOOKUP_REFERENCE | typeof NDS_GET_RADIATION_SPECTRUM | typeof NDS_LIST_AVAILABLE_TARGETS | typeof NDS_GET_REACTION_INFO | typeof NDS_GET_CROSS_SECTION_TABLE | typeof NDS_INTERPOLATE_CROSS_SECTION | typeof NDS_SEARCH_EXFOR | typeof NDS_GET_EXFOR_ENTRY | typeof NDS_GET_CONSTANT | typeof NDS_LIST_CONSTANTS | typeof NDS_GET_DDEP_DECAY;
 //# sourceMappingURL=constants.d.ts.map

package/dist/constants.d.ts.map

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package/dist/constants.js

@@ -6,8 +6,24 @@ export const NDS_GET_DECAY = 'nds_get_decay';
 export const NDS_GET_CHARGE_RADIUS = 'nds_get_charge_radius';
 export const NDS_SEARCH = 'nds_search';
 export const NDS_INFO = 'nds_info';
+export const NDS_CATALOG = 'nds_catalog';
+export const NDS_SCHEMA = 'nds_schema';
+export const NDS_QUERY = 'nds_query';
+export const NDS_LIST_RAW_ARCHIVES = 'nds_list_raw_archives';
+export const NDS_CHECK_UPDATE = 'nds_check_update';
+export const NDS_SELF_UPDATE = 'nds_self_update';
 export const NDS_QUERY_LEVELS = 'nds_query_levels';
 export const NDS_QUERY_GAMMAS = 'nds_query_gammas';
 export const NDS_QUERY_DECAY_FEEDINGS = 'nds_query_decay_feedings';
 export const NDS_LOOKUP_REFERENCE = 'nds_lookup_reference';
+export const NDS_GET_RADIATION_SPECTRUM = 'nds_get_radiation_spectrum';
+export const NDS_LIST_AVAILABLE_TARGETS = 'nds_list_available_targets';
+export const NDS_GET_REACTION_INFO = 'nds_get_reaction_info';
+export const NDS_GET_CROSS_SECTION_TABLE = 'nds_get_cross_section_table';
+export const NDS_INTERPOLATE_CROSS_SECTION = 'nds_interpolate_cross_section';
+export const NDS_SEARCH_EXFOR = 'nds_search_exfor';
+export const NDS_GET_EXFOR_ENTRY = 'nds_get_exfor_entry';
+export const NDS_GET_CONSTANT = 'nds_get_constant';
+export const NDS_LIST_CONSTANTS = 'nds_list_constants';
+export const NDS_GET_DDEP_DECAY = 'nds_get_ddep_decay';
 //# sourceMappingURL=constants.js.map

package/dist/constants.js.map

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package/dist/db/chargeRadii.d.ts

@@ -1,3 +1,4 @@
+export type ChargeRadiusMode = 'best' | 'all' | 'compare';
 export interface LaserSourceInfo {
     delta_r2_fm2: number;
     delta_r2_unc_fm2: number | null;
@@ -17,6 +18,23 @@ export interface ChargeRadiusResult {
     r_charge_preliminary_fm: number | null;
     r_charge_preliminary_unc_fm: number | null;
     laser_spectroscopy: LaserSourceInfo | null;
+    observable_id: string;
+    mode: ChargeRadiusMode;
+    recommended_source: string | null;
+    recommended_source_version: string | null;
+    recommended_r_charge_fm: number | null;
+    recommended_r_charge_unc_fm: number | null;
+    source_values: RadiusSourceValue[];
+    max_source_diff_fm: number | null;
 }
-export declare function getChargeRadius(dbPath: string, Z: number, A?: number): Promise<ChargeRadiusResult[]>;
+export interface RadiusSourceValue {
+    source_name: string;
+    source_version: string;
+    as_of: string;
+    method: string;
+    value_fm: number | null;
+    uncertainty_fm: number | null;
+    unit: 'fm';
+}
+export declare function getChargeRadius(dbPath: string, Z: number, A?: number, mode?: ChargeRadiusMode): Promise<ChargeRadiusResult[]>;
 //# sourceMappingURL=chargeRadii.d.ts.map

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