Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx agentmods add skills/learningmatter-mit/atomisticskills/mat-db-optimadenpx skills add learningmatter-mit/AtomisticSkills --skill mat-db-optimadegit clone --depth 1 https://github.com/learningmatter-mit/AtomisticSkillsWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/skills/learningmatter-mit/atomisticskills/mat-db-optimade)<a href="https://agentmods.dev/skills/learningmatter-mit/atomisticskills/mat-db-optimade"><img src="https://agentmods.dev/badge/skills/learningmatter-mit/atomisticskills/mat-db-optimade.svg" alt="Measured on agentmods" height="20"></a>What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5 | $0.00029 | $0.00607 |
| Opus 5 | $0.00015 | $0.00303 |
| Sonnet 5 | $0.00006 | $0.00121 |
| Haiku 4.5 | $0.00003 | $0.00061 |
Grade A, and why
mat-db-optimade scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured today.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
How it starts
The opening of the file, as written. The whole thing — 53 lines — stays where its author put it; the contents beside it link to each section on GitHub.
mat-db-optimade
Goal
To query experimental crystal structures (e.g. from the Crystallography Open Database - COD, NOMAD) using the standardized REST API provided by OPTIMADE, and to extract the structural data and metadata in a JSON format.
Instructions
Step 1. Querying an OPTIMADE Database
Use the query_optimade.py script to fetch structure data based on standard OPTIMADE query language filters.
# Env: base-agent
python .agents/skills/mat-db-optimade/scripts/query_optimade.py \
results.json \
--filter 'elements HAS ALL "Na", "Cl"' \
--provider cod \
--max_results 5
Parameters:
output: Path to the output JSON file where results will be stored.--filter: The OPTIMADE filter string. (e.g.,elements HAS ALL "O", "Ti").--provider: Comma-separated list of database providers. Defaults tocod.--max_results: Maximum number of structures to pull per provider. Defaults to 10.
Supported Database Providers (Common short IDs)
When using the --provider parameter, you can provide the following short string identifiers for well-known databases:
cod– Crystallography Open Database: The largest open-access collection of experimentally determined crystal structures.nmd– NOMAD: Comprehensive repository of both theoretical methods and experimental configurations.aflow– AFLOW: Automatic-FLOW Computational Materials Data Repository.mp– Materials Project: Well-known theoretical stable/unstable materials repository based on DFT.oqmd– Open Quantum Materials Database: High-throughput DFT database of thermodynamic and structural properties.jarvis– JARVIS: Joint Automated Repository for Various Integrated Simulations.
Constraints
- Environments: The scripts require the
base-agentConda environment. - Provider Status: Sometimes specific providers (like Aflow or NOMAD) may experience API downtime. If a provider fails, the
optimadeclient will log warnings.
What ships with it
7 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- today First seen · 53 lines · 29 tokens per session scan A 9fd0289f6f9b
mat-db-optimade is a skill published in the GitHub repository learningmatter-mit/AtomisticSkills (158 stars, last pushed today), licensed MIT. It adds 29 tokens to every session and 607 once invoked, about $0.0001 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-09-03.
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