install
source · Clone the upstream repo
git clone https://github.com/mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills-
Claude Code · Install into ~/.claude/skills/
T=$(mktemp -d) && git clone --depth=1 https://github.com/mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills- "$T" && mkdir -p ~/.claude/skills && cp -r "$T/Skills/External_Collections/OpenAI_Curated_2026/gh-fix-ci" ~/.claude/skills/mdbabumiamssm-llms-universal-life-science-and-clinical-skills-gh-fix-ci-89c00f && rm -rf "$T"
manifest:
Skills/External_Collections/OpenAI_Curated_2026/gh-fix-ci/SKILL.mdsource content
<!--
# COPYRIGHT NOTICE
# This file is part of the "Universal Biomedical Skills" project.
# Copyright (c) 2026 MD BABU MIA, PhD <md.babu.mia@mssm.edu>
# All Rights Reserved.
#
# This code is proprietary and confidential.
# Unauthorized copying of this file, via any medium is strictly prohibited.
#
# Provenance: Authenticated by MD BABU MIA
-->
name: "gh-fix-ci" description: "Use when a user asks to debug or fix failing GitHub PR checks that run in GitHub Actions; use
gh to inspect checks and logs, summarize failure context, draft a fix plan, and implement only after explicit approval. Treat external providers (for example Buildkite) as out of scope and report only the details URL."
measurable_outcome: Execute skill workflow successfully with valid output within 15 minutes.
allowed-tools:
- read_file
- run_shell_command
Gh Pr Checks Plan Fix
Overview
Use gh to locate failing PR checks, fetch GitHub Actions logs for actionable failures, summarize the failure snippet, then propose a fix plan and implement after explicit approval.
- If a plan-oriented skill (for example
) is available, use it; otherwise draft a concise plan inline and request approval before implementing.create-plan
Prereq: authenticate with the standard GitHub CLI once (for example, run
gh auth login), then confirm with gh auth status (repo + workflow scopes are typically required).
Inputs
: path inside the repo (defaultrepo
).
: PR number or URL (optional; defaults to current branch PR)pr
authentication for the repo hostgh
Quick start
python "<path-to-skill>/scripts/inspect_pr_checks.py" --repo "." --pr "<number-or-url>"- Add
if you want machine-friendly output for summarization.--json
Workflow
- Verify gh authentication.
- Run
in the repo.gh auth status - If unauthenticated, ask the user to run
(ensuring repo + workflow scopes) before proceeding.gh auth login
- Run
- Resolve the PR.
- Prefer the current branch PR:
.gh pr view --json number,url - If the user provides a PR number or URL, use that directly.
- Prefer the current branch PR:
- Inspect failing checks (GitHub Actions only).
- Preferred: run the bundled script (handles gh field drift and job-log fallbacks):
python "<path-to-skill>/scripts/inspect_pr_checks.py" --repo "." --pr "<number-or-url>"- Add
for machine-friendly output.--json
- Manual fallback:
gh pr checks <pr> --json name,state,bucket,link,startedAt,completedAt,workflow- If a field is rejected, rerun with the available fields reported by
.gh
- If a field is rejected, rerun with the available fields reported by
- For each failing check, extract the run id from
and run:detailsUrlgh run view <run_id> --json name,workflowName,conclusion,status,url,event,headBranch,headShagh run view <run_id> --log
- If the run log says it is still in progress, fetch job logs directly:
gh api "/repos/<owner>/<repo>/actions/jobs/<job_id>/logs" > "<path>"
- Preferred: run the bundled script (handles gh field drift and job-log fallbacks):
- Scope non-GitHub Actions checks.
- If
is not a GitHub Actions run, label it as external and only report the URL.detailsUrl - Do not attempt Buildkite or other providers; keep the workflow lean.
- If
- Summarize failures for the user.
- Provide the failing check name, run URL (if any), and a concise log snippet.
- Call out missing logs explicitly.
- Create a plan.
- Use the
skill to draft a concise plan and request approval.create-plan
- Use the
- Implement after approval.
- Apply the approved plan, summarize diffs/tests, and ask about opening a PR.
- Recheck status.
- After changes, suggest re-running the relevant tests and
to confirm.gh pr checks
- After changes, suggest re-running the relevant tests and
Bundled Resources
scripts/inspect_pr_checks.py
Fetch failing PR checks, pull GitHub Actions logs, and extract a failure snippet. Exits non-zero when failures remain so it can be used in automation.
Usage examples:
python "<path-to-skill>/scripts/inspect_pr_checks.py" --repo "." --pr "123"python "<path-to-skill>/scripts/inspect_pr_checks.py" --repo "." --pr "https://github.com/org/repo/pull/123" --jsonpython "<path-to-skill>/scripts/inspect_pr_checks.py" --repo "." --max-lines 200 --context 40