elnora-agent · diff

git:20260417.26d55c8 to git:20260420.201ffc4

26 added, 15 removed. Audit B to B.

---

name: elnora-agent

description: >

This skill should be used when the user asks about "Elnora agent capabilities",

- "what can the agent do", "agent tools", "web search", "academic search",

- "PubMed", "ArXiv", "Exa", "Tavily", "Perplexity", "Valyu", "ToolUniverse",

- "scientific tools", "agent memory", "code execution", "sandbox",

- "search papers", "search literature", "drug discovery", "protein analysis",

- "clinical trials", "file operations", "agent skills",

+ "what can the agent do", "what tools does Elnora have", "what can Elnora do",

+ "agent tools", "web search", "academic search", "PubMed", "ArXiv", "Exa",

+ "Tavily", "Perplexity", "Valyu", "ToolUniverse", "scientific tools",

+ "agent memory", "code execution", "sandbox", "search papers", "search literature",

+ "drug discovery", "protein analysis", "clinical trials", "file operations",

+ "agent skills",

or any question about what the Elnora AI Agent can do when you send it a task.

---

# Elnora Agent Capabilities

The Elnora Agent is a sandboxed Python environment with ~78 core tools + 2,100 ToolUniverse scientific tools. Interact via `tasks create` and `tasks send` — describe what you need in plain language.

## Tool Access

- Elnora is a **command-line tool**. Run commands via your Bash/Shell tool.

+ This skill documents **what the Elnora Agent can do**. It does not have dedicated CLI commands — interact with the agent through the `elnora-tasks` skill.

- - **Command:** `elnora`

- - **Verify:** `elnora --version`

- - **If not found:** tell the user to install it. Detect their platform:

- - macOS/Linux: `curl -fsSL https://cli.elnora.ai/install.sh | bash`

- - Windows (PowerShell): `irm https://cli.elnora.ai/install.ps1 | iex`

- - Any platform with Node.js: `npm install -g @elnora-ai/cli`

+ Elnora is available via two methods. Use whichever is configured.

- **CLI is the recommended path** — it uses fewer tokens, is more reliable, and the commands below are ready to copy-paste.

+ **Option A — CLI via Bash (preferred)**

- If MCP tools prefixed `mcp__elnora__` are available in your tool list, they work too — use whichever the user prefers or whichever is already configured in your environment.

+ Run commands via your Bash/Shell tool as `elnora tasks create ...` or `elnora tasks send ...`. Verify with `elnora --version`.

- **Never fabricate function names** like `elnora_generate_protocol`. All valid commands are listed under "Commands" in this skill.

+ **Tip:** Add `--stream` for real-time agent output:

+ elnora --compact tasks send <TASK_ID> --message "..." --stream

+ **Option B — MCP tools (when CLI isn't installed)**

+ Look for tools prefixed `mcp__elnora__` in your available tools — specifically `mcp__elnora__elnora_tasks_create` and `mcp__elnora__elnora_tasks_send`. Call them with structured parameters (camelCase).

+ **If neither is available, tell the user to install one:**

+ - CLI: `curl -fsSL https://cli.elnora.ai/install.sh | bash` (macOS/Linux)

+ or `irm https://cli.elnora.ai/install.ps1 | iex` (Windows)

+ - MCP: `claude mcp add elnora --transport http --scope user https://mcp.elnora.ai/mcp`

+ then `/mcp` to authenticate.

+ **Never fabricate tool names** like `elnora_generate_protocol`. The agent is interacted with via `tasks.create` and `tasks.send` only — see the `elnora-tasks` skill for full command reference.

## Invocation

```bash

CLI="elnora"

```

## Quick Start

```bash

# Create a task and wait for the response

$CLI --compact tasks create --project <PROJECT_ID> --title "My task" --message "Your request"

# Send follow-up and wait for response

$CLI --compact tasks send <TASK_ID> --message "Follow-up request" --wait

# Or stream the response in real-time

$CLI --compact tasks send <TASK_ID> --message "Follow-up request" --stream

```

## What the Agent Can Do

| Capability | Examples |

|------------|----------|

| **Web search** (34 tools) | Real-time search, neural/semantic search, deep research, URL extraction, site crawling. Providers: Tavily, Exa, Valyu, Perplexity |

| **Academic databases** (12 tools) | PubMed, ArXiv, Semantic Scholar, bioRxiv, Europe PMC, OpenAlex, UniProt, ClinicalTrials.gov, ChEMBL, Wolfram Alpha |

| **2,100+ scientific tools** (ToolUniverse) | Protein structure (AlphaFold, PDB), genomics (Ensembl, ClinVar), chemistry (PubChem, DrugBank), pathways (KEGG, Reactome), drug safety (OpenFDA), and 21 more categories |

| **35 domain skills** | Literature review, experimental design, drug discovery workflow, protein engineering, single-cell RNA QC, statistical analysis, scientific writing |

| **File operations** (11 tools) | Create/read/search files, full-text grep, upload attachments, link files to tasks |

| **Memory** (9 tools) | Remember facts across tasks, share findings between agents, recall prior context |

| **Code execution** | Persistent Python REPL with pandas, numpy, biopython. Variables survive across executions. 30s timeout, 1MB output max |

## Example Prompts

```bash

# Web research

$CLI --compact tasks send "$TASK" --message "Search for recent CRISPR delivery methods and summarize" --wait

# Literature review

$CLI --compact tasks send "$TASK" --message "Search PubMed for BRCA1 DNA repair papers from 2024" --wait

# Drug target research

$CLI --compact tasks send "$TASK" --message "Search for compounds targeting EGFR, cross-reference with active clinical trials" --wait

# Scientific computation

$CLI --compact tasks send "$TASK" --message "Use ToolUniverse to run AlphaFold on this sequence: MVLSPADKTNVKAAWGKVGA" --stream

# Memory

$CLI --compact tasks send "$TASK" --message "Remember that our lab uses Q5 polymerase for all high-fidelity PCR at 62C" --wait

# Reference existing files

$CLI --compact tasks send "$TASK" --message "Read the attached template and generate a new version" --file-refs "<FILE_ID>" --wait

```