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Add Agentic AI Tools and Workflows section - #405

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agentic-ai-section
Aug 25, 2026
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Add Agentic AI Tools and Workflows section#405
mmshad merged 8 commits into
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agentic-ai-section

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@mmshad mmshad commented Jul 30, 2026

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Adds a new top-level section, Agentic AI Tools and Workflows, placed before Security and Compliance. This PR contains the complete section: an Introduction landing page plus three content pages, listed as flat chapters in the TOC.

Introduction: a short overview of what the section covers.

Agentic AI Tools introduces widely used tools for research productivity:

  • Coding assistants and agents (Claude Code, OpenAI Codex, Gemini CLI, GitHub Copilot, Cline, Aider, Cursor, Devin Desktop, OpenHands)
  • Research and science agents (literature tools, autonomous and domain-specific agents, deep research modes)
  • Frameworks for building agents
  • Model Context Protocol (MCP)
  • Guidance on choosing a tool, including Harvard and FAS vetted options and data-sensitivity levels

Using Agentic AI on the Cluster covers running these tools on the cluster:

  • FASRC data-level policy for generative AI on the cluster
  • Setup for a terminal agent (interactive session, install, authentication) and for an IDE agent over VS Code Remote-SSH
  • Permission modes and a warning against bypass mode on shared infrastructure
  • Batch and unattended runs, and responsible-use guidance

HPC Agentic Recipes covers serving open-weight models on the cluster GPUs:

  • Connecting Claude Code to a served endpoint, and serving your own from a recipe
  • A curated model shortlist, serving engines (vLLM and SGLang), and common pitfalls
  • Using the GPUs well: shared endpoints and utilization
  • Points to the KempnerInstitute/hpc-agentic-recipes repository for the runnable recipes

Closes #314

Introduce a new top-level section before Security and Compliance. Fills the Agentic AI Tools page (coding agents, research and science agents, agent frameworks, MCP, and how to choose a tool); the on-cluster and local-models pages are stubs to be filled in follow-up PRs.
@mmshad mmshad self-assigned this Jul 30, 2026
@mmshad mmshad added documentation Improvements or additions to documentation enhancement New feature or request labels Jul 30, 2026
Add setup, permission modes, batch use, responsible-use guidance, and FASRC data-level policy for running agentic tools on the cluster.
@mmshad
mmshad marked this pull request as draft July 30, 2026 02:50
mmshad added 6 commits July 31, 2026 12:54
Complete the Agentic AI Tools and Workflows section: expand the landing overview and fill the Local Agentic Models page (serving open-weight models on the cluster's GPUs, connecting Claude Code, and shared-endpoint utilization).
List the three pages as chapters under the section caption instead of sections nested under the landing page, so they show in the sidebar by default. Retitle the landing page to Introduction.
Refresh against the current repo: new repo name and links, corrected engines (both vLLM and SGLang serve Anthropic-compatible endpoints), five connect variables, concurrency-sweep benchmarking, and an updated model shortlist including Kimi-K3 and the large DeepSeek and Qwen models. Rename the page to HPC Agentic Recipes and update cross-reference link text.
Match the file and URL to the page title and the source repo name; update the TOC entry and the two cross-reference paths.
Update permission-mode guidance to reflect Claude Code now starting Pro/Max/Team sessions in Auto mode (Manual for Enterprise and API-key). Clarify the Qwen3-Coder-480B framing, add the on-cluster Level 2 data payoff to the recipes page, align cross-reference link text with target titles, standardize SLURM and cluster capitalization, and smooth two sentences.
@mmshad
mmshad marked this pull request as ready for review August 25, 2026 17:55
@mmshad
mmshad requested a review from Naeemkh August 25, 2026 17:56
@mmshad
mmshad merged commit 7126314 into main Aug 25, 2026
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@mmshad
mmshad deleted the agentic-ai-section branch August 25, 2026 18:19
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[Feature]: Add a page to introduce Agentic/GenAI Tools

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