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langchain[patch]: Adding new Github functions for reading pull requests (#9027)
The Github utilities are fantastic, so I'm adding support for deeper interaction with pull requests. Agents should read "regular" comments and review comments, and the content of PR files (with summarization or `ctags` abbreviations). Progress: - [x] Add functions to read pull requests and the full content of modified files. - [x] Function to use Github's built in code / issues search. Out of scope: - Smarter summarization of file contents of large pull requests (`tree` output, or ctags). - Smarter functions to checkout PRs and edit the files incrementally before bulk committing all changes. - Docs example for creating two agents: - One watches issues: For every new issue, open a PR with your best attempt at fixing it. - The other watches PRs: For every new PR && every new comment on a PR, check the status and try to finish the job. <!-- Thank you for contributing to LangChain! Replace this comment with: - Description: a description of the change, - Issue: the issue # it fixes (if applicable), - Dependencies: any dependencies required for this change, - Tag maintainer: for a quicker response, tag the relevant maintainer (see below), - Twitter handle: we announce bigger features on Twitter. If your PR gets announced and you'd like a mention, we'll gladly shout you out! Please make sure you're PR is passing linting and testing before submitting. Run `make format`, `make lint` and `make test` to check this locally. If you're adding a new integration, please include: 1. a test for the integration, preferably unit tests that do not rely on network access, 2. an example notebook showing its use. Maintainer responsibilities: - General / Misc / if you don't know who to tag: @baskaryan - DataLoaders / VectorStores / Retrievers: @rlancemartin, @eyurtsev - Models / Prompts: @hwchase17, @baskaryan - Memory: @hwchase17 - Agents / Tools / Toolkits: @hinthornw - Tracing / Callbacks: @agola11 - Async: @agola11 If no one reviews your PR within a few days, feel free to @-mention the same people again. See contribution guidelines for more information on how to write/run tests, lint, etc: https://github.com/hwchase17/langchain/blob/master/.github/CONTRIBUTING.md --> --------- Co-authored-by: Erick Friis <erick@langchain.dev>
This commit is contained in:
Kastan Day
GitHub
parent
aa8ae31e5b
commit
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@ -76,18 +76,17 @@
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"* Pull requests (read and write)\n",
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"\n",
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"\n",
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"\n",
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"Once the app has been registered, add it to the repository you wish the bot to act upon.\n",
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"Once the app has been registered, you must give your app permission to access each of the repositories you whish it to act upon. Use the App settings on [github.com here](https://github.com/settings/installations).\n",
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"\n",
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"### 3. Set Environmental Variables\n",
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"\n",
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"Before initializing your agent, the following environmental variables need to be set:\n",
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"\n",
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"* **GITHUB_APP_ID**- A six digit number found in your app's general settings\n",
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"* **GITHUB_APP_PRIVATE_KEY**- The location of your app's private key .pem file\n",
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"* **GITHUB_REPOSITORY**- The name of the Github repository you want your bot to act upon. Must follow the format {username}/{repo-name}. Make sure the app has been added to this repository first!\n",
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"* **GITHUB_BRANCH**- The branch where the bot will make its commits. Defaults to 'master.'\n",
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"* **GITHUB_BASE_BRANCH**- The base branch of your repo, usually either 'main' or 'master.' This is where pull requests will base from. Defaults to 'master.'\n"
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"* **GITHUB_APP_PRIVATE_KEY**- The location of your app's private key .pem file, or the full text of that file as a string.\n",
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"* **GITHUB_REPOSITORY**- The name of the Github repository you want your bot to act upon. Must follow the format {username}/{repo-name}. *Make sure the app has been added to this repository first!*\n",
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"* Optional: **GITHUB_BRANCH**- The branch where the bot will make its commits. Defaults to `repo.default_branch`.\n",
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"* Optional: **GITHUB_BASE_BRANCH**- The base branch of your repo upon which PRs will based from. Defaults to `repo.default_branch`.\n"
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]
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},
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{
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@ -99,7 +98,7 @@
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},
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{
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"cell_type": "code",
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"execution_count": 47,
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"execution_count": 2,
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"metadata": {},
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"outputs": [],
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"source": [
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@ -107,13 +106,13 @@
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"\n",
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"from langchain.agents import AgentType, initialize_agent\n",
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"from langchain.agents.agent_toolkits.github.toolkit import GitHubToolkit\n",
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"from langchain.llms import OpenAI\n",
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"from langchain.chat_models import ChatOpenAI\n",
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"from langchain.utilities.github import GitHubAPIWrapper"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 53,
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"execution_count": 3,
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"metadata": {},
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"outputs": [],
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"source": [
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@ -130,16 +129,54 @@
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},
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{
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"cell_type": "code",
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"execution_count": 54,
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"execution_count": 5,
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"metadata": {},
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"outputs": [],
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"Available tools:\n",
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"\tGet Issues\n",
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"\tGet Issue\n",
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"\tComment on Issue\n",
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"\tList open pull requests (PRs)\n",
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"\tGet Pull Request\n",
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"\tOverview of files included in PR\n",
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"\tCreate Pull Request\n",
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"\tList Pull Requests' Files\n",
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"\tCreate File\n",
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"\tRead File\n",
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"\tUpdate File\n",
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"\tDelete File\n",
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"\tOverview of existing files in Main branch\n",
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"\tOverview of files in current working branch\n",
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"\tList branches in this repository\n",
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"\tSet active branch\n",
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"\tCreate a new branch\n",
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"\tGet files from a directory\n",
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"\tSearch issues and pull requests\n",
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"\tSearch code\n",
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"\tCreate review request\n"
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]
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}
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],
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"source": [
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"llm = OpenAI(temperature=0)\n",
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"llm = ChatOpenAI(temperature=0, model=\"gpt-4-1106-preview\")\n",
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"github = GitHubAPIWrapper()\n",
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"toolkit = GitHubToolkit.from_github_api_wrapper(github)\n",
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"tools = toolkit.get_tools()\n",
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"\n",
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"# STRUCTURED_CHAT includes args_schema for each tool, helps tool args parsing errors.\n",
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"agent = initialize_agent(\n",
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" toolkit.get_tools(), llm, agent=AgentType.ZERO_SHOT_REACT_DESCRIPTION, verbose=True\n",
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")"
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" tools,\n",
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" llm,\n",
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" agent=AgentType.STRUCTURED_CHAT_ZERO_SHOT_REACT_DESCRIPTION,\n",
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" verbose=True,\n",
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")\n",
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"print(\"Available tools:\")\n",
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"for tool in tools:\n",
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" print(\"\\t\" + tool.name)"
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]
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},
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{
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@ -219,7 +256,428 @@
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"## Example: Advanced Agent\n",
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"## Example: Read an issue, open a pull request\n",
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"\n",
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"Workflow: \n",
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"1. Read issues, either a specific one or just ask it to look at recent ones. \n",
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"2. Write code, commit it to a new branch.\n",
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"3. Open a PR\n",
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"4. \"Request review\" on the PR from the original author of the issue.\n",
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"\n",
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"\n",
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"### Input data and LangSmith Trace\n",
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"* LangSmith trace for this run: https://smith.langchain.com/public/fee6643c-b214-42d0-967b-d24dcdd690fe/r\n",
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"* Input issue: https://github.com/KastanDay/ML4Bio/issues/33\n",
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"* Final PR created by bot: https://github.com/KastanDay/ML4Bio/pull/40"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 7,
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"metadata": {},
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"Please implement these changes by creating or editing the necessary files. \n",
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"\n",
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"1. First use read_file to read any files in the repo that seem relevant. \n",
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"2. Then, when you're ready, start implementing changes by creating and updating files. Implement any and all remaining code to make the project work as the commenter intended. \n",
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"2. The last step is to create a PR with a clear and concise title and description, list any concerns or final changes necessary in the PR body.\n",
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"3. After opening the PR, comment on the original issue and mention the new PR your just opened, you must comment \"I opened a PR for you to review here #<PR_NUMBER>\" (it'll be something like #30). That hashtag syntax will automatically link to the PR, as necessary. Thanks.\n",
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"4. If you feel the PR is satisfactory for completing your assignment, create a review request for the original user that opened the issue. Use their username to tag them.\n",
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"\n",
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"Feel free to ask for help or leave a comment on the Issue or PR if you're stuck.\n",
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"\n",
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"Here's your latest assignment: {issue_description}\n"
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]
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}
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],
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"source": [
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"from langchain import hub\n",
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"\n",
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"gh_issue_prompt_template = hub.pull(\"kastanday/new-github-issue\")\n",
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"print(gh_issue_prompt_template.template)"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 17,
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"metadata": {},
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"Please implement these changes by creating or editing the necessary files. \n",
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"\n",
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"1. First use read_file to read any files in the repo that seem relevant. \n",
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"2. Then, when you're ready, start implementing changes by creating and updating files. Implement any and all remaining code to make the project work as the commenter intended. \n",
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"2. The last step is to create a PR with a clear and concise title and description, list any concerns or final changes necessary in the PR body.\n",
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"3. After opening the PR, comment on the original issue and mention the new PR your just opened, you must comment \"I opened a PR for you to review here #<PR_NUMBER>\" (it'll be something like #30). That hashtag syntax will automatically link to the PR, as necessary. Thanks.\n",
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"4. If you feel the PR is satisfactory for completing your assignment, create a review request for the original user that opened the issue. Use their username to tag them.\n",
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"\n",
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"Feel free to ask for help or leave a comment on the Issue or PR if you're stuck.\n",
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"\n",
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"Here's your latest assignment: Title: Create a full command line executable workflow for RNA-Seq on PBMC Samples. Open a new pull request (on a separate branch) and comment the PR number here when you're done..\n",
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"Opened by user: KastanDay\n",
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"Body: Experiment Type:\n",
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"RNA-Seq\n",
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"Sequencing of total cellular RNA\n",
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"\n",
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"Workflow Management:\n",
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"Bash/SLURM\n",
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"Scripting and job scheduling\n",
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"\n",
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"Software Stack:\n",
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"FastQC\n",
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"MultiQC\n",
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"STAR\n",
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"RSEM\n",
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"samtools\n",
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"DESeq2\n",
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"\n",
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"What else to know about the pipeline?\n",
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"I am working PBMC samples collected from patients that are undergoing immunotherapy.\n",
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"\n",
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"Use the data files existing in [Report_WholeBrain](https://github.com/KastanDay/ML4Bio/tree/main/Report_WholeBrain) as input for this workflow.\n",
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"\n",
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"You should write a series of bash scripts and R scripts that can accomplish this task. Open a PR with those scripts when you're done.\n"
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]
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}
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],
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"source": [
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"def format_issue(issue):\n",
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" title = f\"Title: {issue.get('title')}.\"\n",
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" opened_by = f\"Opened by user: {issue.get('opened_by')}\"\n",
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" body = f\"Body: {issue.get('body')}\"\n",
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" comments = issue.get(\"comments\") # often too long\n",
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" return \"\\n\".join([title, opened_by, body])\n",
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"\n",
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"\n",
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"issue = github.get_issue(33) # task to implement a RNA-seq pipeline (bioinformatics)\n",
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"final_gh_issue_prompt = gh_issue_prompt_template.format(\n",
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" issue_description=format_issue(issue)\n",
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")\n",
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"print(final_gh_issue_prompt)"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 9,
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"metadata": {},
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"outputs": [],
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"source": [
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"from langchain.memory.summary_buffer import ConversationSummaryBufferMemory\n",
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"from langchain_core.prompts.chat import MessagesPlaceholder\n",
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"\n",
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"summarizer_llm = ChatOpenAI(temperature=0, model=\"gpt-3.5-turbo\") # type: ignore\n",
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"chat_history = MessagesPlaceholder(variable_name=\"chat_history\")\n",
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"memory = ConversationSummaryBufferMemory(\n",
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" memory_key=\"chat_history\",\n",
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" return_messages=True,\n",
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" llm=summarizer_llm,\n",
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" max_token_limit=2_000,\n",
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")\n",
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"\n",
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"agent = initialize_agent(\n",
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" tools,\n",
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" llm,\n",
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" agent=AgentType.STRUCTURED_CHAT_ZERO_SHOT_REACT_DESCRIPTION,\n",
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" verbose=True,\n",
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" handle_parsing_errors=True, # or pass a function that accepts the error and returns a string\n",
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" max_iterations=30,\n",
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" max_execution_time=None,\n",
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" early_stopping_method=\"generate\",\n",
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" memory=memory,\n",
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" # trim_intermediate_steps=fancier_trim_intermediate_steps,\n",
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" agent_kwargs={\n",
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" \"memory_prompts\": [chat_history],\n",
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" \"input_variables\": [\"input\", \"agent_scratchpad\", \"chat_history\"],\n",
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" \"prefix\": final_gh_issue_prompt,\n",
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" },\n",
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")"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 10,
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"metadata": {},
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"\n",
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"\n",
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"\u001b[1m> Entering new AgentExecutor chain...\u001b[0m\n",
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"\u001b[32;1m\u001b[1;3m```json\n",
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"{\n",
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" \"action\": \"Get files from a directory\",\n",
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" \"action_input\": \"ML4Bio/tree/main/Report_WholeBrain\"\n",
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"}\n",
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"```\u001b[0m\n",
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"Observation: \u001b[38;5;200m\u001b[1;3mError: status code 404, None\u001b[0m\n",
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"Thought:\u001b[32;1m\u001b[1;3mThe previous action to get files from a directory failed because the path provided does not exist or is not accessible. I need to correct the path to access the files in the `Report_WholeBrain` directory. Let's try to fetch the list of files from the correct directory path. \n",
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"\n",
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"Action:\n",
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"```json\n",
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"{\n",
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" \"action\": \"Get files from a directory\",\n",
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" \"action_input\": \"Report_WholeBrain\"\n",
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"}\n",
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"```\u001b[0m\n",
|
||||
"Observation: \u001b[38;5;200m\u001b[1;3m['Report_WholeBrain/MDSclustering_WholeBrain.html', 'Report_WholeBrain/MDSclustering_WholeBrain_RUVremoved.html', 'Report_WholeBrain/Report_Antonson_WholeBrain_2022Mar.Rmd', 'Report_WholeBrain/Report_WholeBrain_files/figure-html/Figure 1-1.png', 'Report_WholeBrain/Report_WholeBrain_files/figure-html/Figure 2-1.png', 'Report_WholeBrain/Report_WholeBrain_files/figure-html/Figure 3-1.png', 'Report_WholeBrain/Report_WholeBrain_files/figure-html/Figure 4-1.png', 'Report_WholeBrain/Report_WholeBrain_files/figure-html/Figure 6-1.png', 'Report_WholeBrain/Report_WholeBrain_files/figure-html/Figure 7-1.png', 'Report_WholeBrain/Report_WholeBrain_files/figure-html/Figure 8-1.png', 'Report_WholeBrain/Report_WholeBrain_files/figure-html/Figure 9-1.png', 'Report_WholeBrain/SalmonSummarizedOutput.RData', 'Report_WholeBrain/SampleInfo_RUVvariables_WholeBrain_2022-05-12.csv', 'Report_WholeBrain/Targets_Final.txt', 'Report_WholeBrain/WholeBrain_GeneResults_2022-05-12.xlsx', 'Report_WholeBrain/WholeBrain_GeneResults_RUV_2022-05-12.xlsx', 'Report_WholeBrain/WholeBrain_Gene_level_counts_2022-05-12.xlsx', 'Report_WholeBrain/WholeBrain_RUV_FDR0.1.html', 'Report_WholeBrain/WholeBrain_logCPMValues_RUVcorrected_2022-05-12.xlsx', 'Report_WholeBrain/WholeBrain_logCPMvalues_2022-05-12.xlsx', 'Report_WholeBrain/WholeBrain_rawP05.html', 'Report_WholeBrain/getGO.R', 'Report_WholeBrain/getPath.R', 'Report_WholeBrain/interactive_plots/css/glimma.min.css', 'Report_WholeBrain/interactive_plots/css/src/images/animated-overlay.gif', 'Report_WholeBrain/interactive_plots/css/src/images/favicon.ico', 'Report_WholeBrain/interactive_plots/css/src/images/sort_asc.png', 'Report_WholeBrain/interactive_plots/css/src/images/sort_asc_disabled.png', 'Report_WholeBrain/interactive_plots/css/src/images/sort_both.png', 'Report_WholeBrain/interactive_plots/css/src/images/sort_desc.png', 'Report_WholeBrain/interactive_plots/css/src/images/sort_desc_disabled.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-bg_flat_0_aaaaaa_40x100.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-bg_flat_75_ffffff_40x100.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-bg_glass_55_fbf9ee_1x400.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-bg_glass_65_ffffff_1x400.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-bg_glass_75_dadada_1x400.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-bg_glass_75_e6e6e6_1x400.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-bg_glass_95_fef1ec_1x400.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-bg_highlight-soft_75_cccccc_1x100.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-icons_222222_256x240.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-icons_2e83ff_256x240.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-icons_454545_256x240.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-icons_888888_256x240.png', 'Report_WholeBrain/interactive_plots/css/src/images/ui-icons_cd0a0a_256x240.png', 'Report_WholeBrain/interactive_plots/js/glimma.min.js', 'Report_WholeBrain/interactive_plots/js/old_MDSclustering_Microglia.js', 'Report_WholeBrain/interactive_plots/js/old_MDSclustering_Microglia_RUV.js', 'Report_WholeBrain/interactive_plots/js/old_MDSclustering_WholeBrain.js', 'Report_WholeBrain/interactive_plots/js/old_MDSclustering_WholeBrain_RUV.js', 'Report_WholeBrain/interactive_plots/js/old_MDSclustering_WholeBrain_noOUT.js', 'Report_WholeBrain/interactive_plots/js/old_Microglia_rawP05.js', 'Report_WholeBrain/interactive_plots/js/old_WholeBrain_RUV_FDR0.1.js', 'Report_WholeBrain/interactive_plots/js/old_WholeBrain_rawP05.js', 'Report_WholeBrain/interactive_plots/old_MDSclustering_Microglia.html', 'Report_WholeBrain/interactive_plots/old_MDSclustering_Microglia_RUV.html', 'Report_WholeBrain/interactive_plots/old_MDSclustering_WholeBrain.html', 'Report_WholeBrain/interactive_plots/old_MDSclustering_WholeBrain_RUV.html', 'Report_WholeBrain/interactive_plots/old_MDSclustering_WholeBrain_noOUT.html', 'Report_WholeBrain/interactive_plots/old_Microglia_rawP05.html', 'Report_WholeBrain/interactive_plots/old_WholeBrain_RUV_FDR0.1.html', 'Report_WholeBrain/interactive_plots/old_WholeBrain_rawP05.html', 'Report_WholeBrain/trx_EGids_combined.txt', 'Report_WholeBrain/⭐️____Report_Antonson_WholeBrain_2022Mar.html']\u001b[0m\n",
|
||||
"Thought:\u001b[32;1m\u001b[1;3mThe files in the `Report_WholeBrain` directory seem to be mostly reports, images, and some R scripts. However, none of these files appear to be raw RNA-Seq data files or scripts directly related to the RNA-Seq workflow requested by the user. To proceed with creating the workflow, I will need to create new bash and R scripts that will handle the RNA-Seq analysis using the software stack mentioned (FastQC, MultiQC, STAR, RSEM, samtools, DESeq2).\n",
|
||||
"\n",
|
||||
"Before creating the scripts, I should create a new branch to work on this feature.\n",
|
||||
"\n",
|
||||
"Action:\n",
|
||||
"```json\n",
|
||||
"{\n",
|
||||
" \"action\": \"Create a new branch\",\n",
|
||||
" \"action_input\": \"rna-seq-workflow\"\n",
|
||||
"}\n",
|
||||
"```\u001b[0m\n",
|
||||
"Observation: \u001b[33;1m\u001b[1;3mBranch 'rna-seq-workflow_v1' created successfully, and set as current active branch.\u001b[0m\n",
|
||||
"Thought:\u001b[32;1m\u001b[1;3mNow that the new branch `rna-seq-workflow_v1` is created and active, I can start creating the necessary bash and R scripts for the RNA-Seq workflow. I will begin by creating a bash script for quality control using FastQC and MultiQC.\n",
|
||||
"\n",
|
||||
"Action:\n",
|
||||
"```json\n",
|
||||
"{\n",
|
||||
" \"action\": \"Create File\",\n",
|
||||
" \"action_input\": \"rna-seq-workflow/01_quality_control.sh\\n#!/bin/bash\\n#PBS -N quality_control\\n#PBS -l walltime=04:00:00\\n#PBS -l nodes=1:ppn=8\\n#PBS -q batch\\n\\n# Load modules for FastQC and MultiQC\\nmodule load FastQC/0.11.8\\nmodule load MultiQC/1.9\\n\\n# Define input and output directories\\nINPUT_DIR='/path/to/raw_data'\\nOUTPUT_DIR='/path/to/output/quality_control'\\n\\n# Create output directory if it doesn't exist\\nmkdir -p $OUTPUT_DIR\\n\\n# Run FastQC on all files in the input directory\\nfastqc -o $OUTPUT_DIR -t 8 $INPUT_DIR/*.fastq.gz\\n\\n# Run MultiQC to aggregate results\\nmultiqc -o $OUTPUT_DIR $OUTPUT_DIR\\n\"\n",
|
||||
"}\n",
|
||||
"```\u001b[0m\n",
|
||||
"Observation: \u001b[38;5;200m\u001b[1;3mCreated file rna-seq-workflow/01_quality_control.sh\u001b[0m\n",
|
||||
"Thought:\u001b[32;1m\u001b[1;3mThe quality control bash script has been created successfully. Next, I will create a bash script for the alignment step using STAR.\n",
|
||||
"\n",
|
||||
"Action:\n",
|
||||
"```json\n",
|
||||
"{\n",
|
||||
" \"action\": \"Create File\",\n",
|
||||
" \"action_input\": \"rna-seq-workflow/02_alignment.sh\\n#!/bin/bash\\n#PBS -N alignment\\n#PBS -l walltime=08:00:00\\n#PBS -l nodes=1:ppn=16\\n#PBS -q batch\\n\\n# Load module for STAR\\nmodule load STAR/2.7.3a\\n\\n# Define input and output directories\\nINPUT_DIR='/path/to/quality_control'\\nOUTPUT_DIR='/path/to/output/alignment'\\nGENOME_DIR='/path/to/genome_indices'\\n\\n# Create output directory if it doesn't exist\\nmkdir -p $OUTPUT_DIR\\n\\n# Run STAR for each sample\\nfor sample in $INPUT_DIR/*.fastq.gz\\ndo\\n # Define output file names\\n prefix=$(basename $sample .fastq.gz)\\n output_prefix=$OUTPUT_DIR/$prefix\\n\\n # Run STAR\\n STAR --runThreadN 16 --genomeDir $GENOME_DIR --readFilesIn $sample --readFilesCommand zcat --outFileNamePrefix $output_prefix --outSAMtype BAM SortedByCoordinate\\n\\ndone\\n\"\n",
|
||||
"}\n",
|
||||
"```\u001b[0m\n",
|
||||
"Observation: \u001b[38;5;200m\u001b[1;3mCreated file rna-seq-workflow/02_alignment.sh\u001b[0m\n",
|
||||
"Thought:\u001b[32;1m\u001b[1;3mThe alignment bash script has been created successfully. Next, I will create a bash script for transcript quantification using RSEM.\n",
|
||||
"\n",
|
||||
"Action:\n",
|
||||
"```json\n",
|
||||
"{\n",
|
||||
" \"action\": \"Create File\",\n",
|
||||
" \"action_input\": \"rna-seq-workflow/03_transcript_quantification.sh\\n#!/bin/bash\\n#PBS -N transcript_quantification\\n#PBS -l walltime=12:00:00\\n#PBS -l nodes=1:ppn=8\\n#PBS -q batch\\n\\n# Load module for RSEM\\nmodule load RSEM/1.3.3\\n\\n# Define input and output directories\\nINPUT_DIR='/path/to/alignment'\\nOUTPUT_DIR='/path/to/output/transcript_quantification'\\nREFERENCE_DIR='/path/to/reference'\\n\\n# Create output directory if it doesn't exist\\nmkdir -p $OUTPUT_DIR\\n\\n# Run RSEM for each sample\\nfor bam in $INPUT_DIR/*.bam\\ndo\\n # Define output file names\\n prefix=$(basename $bam .bam)\\n output_prefix=$OUTPUT_DIR/$prefix\\n\\n # Run RSEM\\n rsem-calculate-expression --bam --no-bam-output --estimate-rspd --append-names --output-genome-bam -p 8 $bam $REFERENCE_DIR $output_prefix\\n\\ndone\\n\"\n",
|
||||
"}\n",
|
||||
"```\n",
|
||||
"\u001b[0m\n",
|
||||
"Observation: \u001b[38;5;200m\u001b[1;3mCreated file rna-seq-workflow/03_transcript_quantification.sh\u001b[0m\n",
|
||||
"Thought:\u001b[32;1m\u001b[1;3mThe transcript quantification bash script has been created successfully. Now, I will create a bash script for sorting and indexing BAM files using samtools, which is a common step before differential expression analysis.\n",
|
||||
"\n",
|
||||
"Action:\n",
|
||||
"```json\n",
|
||||
"{\n",
|
||||
" \"action\": \"Create File\",\n",
|
||||
" \"action_input\": \"rna-seq-workflow/04_sort_index_bam.sh\\n#!/bin/bash\\n#PBS -N sort_index_bam\\n#PBS -l walltime=02:00:00\\n#PBS -l nodes=1:ppn=4\\n#PBS -q batch\\n\\n# Load module for samtools\\nmodule load samtools/1.10\\n\\n# Define input and output directories\\nINPUT_DIR='/path/to/alignment'\\nOUTPUT_DIR='/path/to/output/sorted_bams'\\n\\n# Create output directory if it doesn't exist\\nmkdir -p $OUTPUT_DIR\\n\\n# Sort and index BAM files\\nfor bam in $INPUT_DIR/*.bam\\ndo\\n # Define output file names\\n sorted_bam=$OUTPUT_DIR/$(basename $bam .bam).sorted.bam\\n\\n # Sort BAM file\\n samtools sort -@ 4 -o $sorted_bam $bam\\n\\n # Index sorted BAM file\\n samtools index $sorted_bam\\ndone\\n\"\n",
|
||||
"}\n",
|
||||
"```\u001b[0m\n",
|
||||
"Observation: \u001b[38;5;200m\u001b[1;3mCreated file rna-seq-workflow/04_sort_index_bam.sh\u001b[0m\n",
|
||||
"Thought:\u001b[32;1m\u001b[1;3mThe sorting and indexing of BAM files script has been created successfully. The next step is to create an R script for differential expression analysis using DESeq2. This script will be executed after the previous steps in the workflow have been completed.\n",
|
||||
"\n",
|
||||
"Action:\n",
|
||||
"```json\n",
|
||||
"{\n",
|
||||
" \"action\": \"Create File\",\n",
|
||||
" \"action_input\": \"rna-seq-workflow/05_differential_expression.R\\n# Load DESeq2 library\\nlibrary(DESeq2)\\n\\n# Set input directory\\ninput_dir <- '/path/to/transcript_quantification'\\n\\n# Read in the count matrix and the sample information\\n# Assuming countData is a matrix with count data and colData is a DataFrame with sample information\\ncountData <- as.matrix(read.csv(file.path(input_dir, 'count_matrix.csv'), row.names=1))\\ncolData <- read.csv(file.path(input_dir, 'colData.csv'))\\n\\n# Create a DESeqDataSet object\\ndds <- DESeqDataSetFromMatrix(countData = countData,\\n colData = colData,\\n design = ~ condition)\\n\\n# Run the differential expression analysis\\ndds <- DESeq(dds)\\n\\n# Get the results\\nres <- results(dds)\\n\\n# Order the results by the adjusted p-value\\nresOrdered <- res[order(res$padj),]\\n\\n# Write the results to a CSV file\\nwrite.csv(as.data.frame(resOrdered), file.path(input_dir, 'differential_expression_results.csv'))\\n\"\n",
|
||||
"}\n",
|
||||
"```\n",
|
||||
"\u001b[0m\n",
|
||||
"Observation: \u001b[38;5;200m\u001b[1;3mCreated file rna-seq-workflow/05_differential_expression.R\u001b[0m\n",
|
||||
"Thought:\u001b[32;1m\u001b[1;3mThe R script for differential expression analysis using DESeq2 has been created successfully. Now that all the necessary scripts for the RNA-Seq workflow have been created, I should create a master bash script that will call each of these scripts in sequence to run the entire workflow.\n",
|
||||
"\n",
|
||||
"Action:\n",
|
||||
"```json\n",
|
||||
"{\n",
|
||||
" \"action\": \"Create File\",\n",
|
||||
" \"action_input\": \"rna-seq-workflow/run_workflow.sh\\n#!/bin/bash\\n# Master script to run the RNA-Seq workflow\\n\\n# Run quality control\\nbash 01_quality_control.sh\\n\\n# Run alignment\\nbash 02_alignment.sh\\n\\n# Run transcript quantification\\nbash 03_transcript_quantification.sh\\n\\n# Sort and index BAM files\\nbash 04_sort_index_bam.sh\\n\\n# Run differential expression analysis\\nRscript 05_differential_expression.R\\n\\n# Workflow completed\\necho \\\"RNA-Seq workflow completed successfully.\\\"\\n\"\n",
|
||||
"}\n",
|
||||
"```\u001b[0m\n",
|
||||
"Observation: \u001b[38;5;200m\u001b[1;3mCreated file rna-seq-workflow/run_workflow.sh\u001b[0m\n",
|
||||
"Thought:\u001b[32;1m\u001b[1;3mThe master bash script to run the entire RNA-Seq workflow has been created successfully. The next step is to create a pull request with all the scripts that have been created in the `rna-seq-workflow_v1` branch.\n",
|
||||
"\n",
|
||||
"Action:\n",
|
||||
"```json\n",
|
||||
"{\n",
|
||||
" \"action\": \"Create Pull Request\",\n",
|
||||
" \"action_input\": \"Create a full command line executable workflow for RNA-Seq on PBMC Samples\\n\\nThis pull request includes a series of bash and R scripts to perform RNA-Seq analysis on PBMC samples. The workflow includes steps for quality control, alignment, transcript quantification, sorting and indexing BAM files, and differential expression analysis using the following software stack: FastQC, MultiQC, STAR, RSEM, samtools, and DESeq2.\\n\\nPlease review the scripts and provide feedback or request any additional changes as necessary.\"\n",
|
||||
"}\n",
|
||||
"```\u001b[0m\n",
|
||||
"Observation: \u001b[36;1m\u001b[1;3mSuccessfully created PR number 40\u001b[0m\n",
|
||||
"Thought:\u001b[32;1m\u001b[1;3mThe pull request has been successfully created. Now, I need to comment on the original issue to inform the user about the new PR.\n",
|
||||
"\n",
|
||||
"Action:\n",
|
||||
"```json\n",
|
||||
"{\n",
|
||||
" \"action\": \"Comment on Issue\",\n",
|
||||
" \"action_input\": \"2\\n\\nI opened a PR for you to review here #40\"\n",
|
||||
"}\n",
|
||||
"```\u001b[0m\n",
|
||||
"Observation: \u001b[38;5;200m\u001b[1;3mCommented on issue 2\u001b[0m\n",
|
||||
"Thought:\u001b[32;1m\u001b[1;3mThe comment has been posted on the original issue. Now, I will create a review request for the user KastanDay who opened the issue.\n",
|
||||
"\n",
|
||||
"Action:\n",
|
||||
"```json\n",
|
||||
"{\n",
|
||||
" \"action\": \"Create review request\",\n",
|
||||
" \"action_input\": \"KastanDay\"\n",
|
||||
"}\n",
|
||||
"```\u001b[0m\n",
|
||||
"Observation: \u001b[38;5;200m\u001b[1;3mReview request created for user KastanDay on PR #40\u001b[0m\n",
|
||||
"Thought:\u001b[32;1m\u001b[1;3mAction:\n",
|
||||
"```json\n",
|
||||
"{\n",
|
||||
" \"action\": \"Final Answer\",\n",
|
||||
" \"action_input\": \"The tasks have been completed: a new branch was created, the necessary scripts for the RNA-Seq workflow were written, a pull request was opened, the original issue was commented on with the PR number, and a review request was sent to the user KastanDay.\"\n",
|
||||
"}\n",
|
||||
"```\u001b[0m\n",
|
||||
"\n",
|
||||
"\u001b[1m> Finished chain.\u001b[0m\n"
|
||||
]
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"from langchain_core.tracers.context import tracing_v2_enabled\n",
|
||||
"\n",
|
||||
"# To use langsmith (recommended for these long tasks):\n",
|
||||
"os.environ[\"LANGCHAIN_TRACING_V2\"] = \"true\"\n",
|
||||
"os.environ[\"LANGCHAIN_ENDPOINT\"] = \"https://api.smith.langchain.com\"\n",
|
||||
"os.environ[\"LANGCHAIN_API_KEY\"] = \"ls__......\"\n",
|
||||
"os.environ[\"LANGCHAIN_PROJECT\"] = \"Github_Demo_PR\"\n",
|
||||
"os.environ[\"LANGCHAIN_WANDB_TRACING\"] = \"false\"\n",
|
||||
"\n",
|
||||
"\n",
|
||||
"with tracing_v2_enabled(project_name=\"Github_Demo_PR\", tags=[\"PR_bot\"]) as cb:\n",
|
||||
" agent.run(final_gh_issue_prompt)"
|
||||
]
|
||||
},
|
||||
{
|
||||
"cell_type": "markdown",
|
||||
"metadata": {},
|
||||
"source": [
|
||||
"## Full text of tools\n",
|
||||
"\n",
|
||||
"When using or building tools, it's always helpful to inspect what the model sees.\n",
|
||||
"\n",
|
||||
"On OpenAI models, tool descriptions are part of the `SystemPrompt`.\n",
|
||||
"\n",
|
||||
"The `args` are added to the prompt in structured chats, e.g. `AgentType.STRUCTURED_CHAT_ZERO_SHOT_REACT_DESCRIPTION`, but not in `AgentType.ZERO_SHOT_REACT_DESCRIPTION`."
|
||||
]
|
||||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": 11,
|
||||
"metadata": {},
|
||||
"outputs": [
|
||||
{
|
||||
"name": "stdout",
|
||||
"output_type": "stream",
|
||||
"text": [
|
||||
"Get Issues: \n",
|
||||
"This tool will fetch a list of the repository's issues. It will return the title, and issue number of 5 issues. It takes no input., args: {'no_input': {'title': 'No Input', 'description': 'No input required, e.g. `` (empty string).', 'default': '', 'type': 'string'}}\n",
|
||||
"Get Issue: \n",
|
||||
"This tool will fetch the title, body, and comment thread of a specific issue. **VERY IMPORTANT**: You must specify the issue number as an integer., args: {'issue_number': {'title': 'Issue Number', 'description': 'Issue number as an integer, e.g. `42`', 'default': 0, 'type': 'integer'}}\n",
|
||||
"Comment on Issue: \n",
|
||||
"This tool is useful when you need to comment on a GitHub issue. Simply pass in the issue number and the comment you would like to make. Please use this sparingly as we don't want to clutter the comment threads. **VERY IMPORTANT**: Your input to this tool MUST strictly follow these rules:\n",
|
||||
"\n",
|
||||
"- First you must specify the issue number as an integer\n",
|
||||
"- Then you must place two newlines\n",
|
||||
"- Then you must specify your comment, args: {'input': {'title': 'Input', 'description': 'Follow the required formatting.', 'type': 'string'}}\n",
|
||||
"List open pull requests (PRs): \n",
|
||||
"This tool will fetch a list of the repository's Pull Requests (PRs). It will return the title, and PR number of 5 PRs. It takes no input., args: {'no_input': {'title': 'No Input', 'description': 'No input required, e.g. `` (empty string).', 'default': '', 'type': 'string'}}\n",
|
||||
"Get Pull Request: \n",
|
||||
"This tool will fetch the title, body, comment thread and commit history of a specific Pull Request (by PR number). **VERY IMPORTANT**: You must specify the PR number as an integer., args: {'pr_number': {'title': 'Pr Number', 'description': 'The PR number as an integer, e.g. `12`', 'default': 0, 'type': 'integer'}}\n",
|
||||
"Overview of files included in PR: \n",
|
||||
"This tool will fetch the full text of all files in a pull request (PR) given the PR number as an input. This is useful for understanding the code changes in a PR or contributing to it. **VERY IMPORTANT**: You must specify the PR number as an integer input parameter., args: {'pr_number': {'title': 'Pr Number', 'description': 'The PR number as an integer, e.g. `12`', 'default': 0, 'type': 'integer'}}\n",
|
||||
"Create Pull Request: \n",
|
||||
"This tool is useful when you need to create a new pull request in a GitHub repository. **VERY IMPORTANT**: Your input to this tool MUST strictly follow these rules:\n",
|
||||
"\n",
|
||||
"- First you must specify the title of the pull request\n",
|
||||
"- Then you must place two newlines\n",
|
||||
"- Then you must write the body or description of the pull request\n",
|
||||
"\n",
|
||||
"When appropriate, always reference relevant issues in the body by using the syntax `closes #<issue_number` like `closes #3, closes #6`.\n",
|
||||
"For example, if you would like to create a pull request called \"README updates\" with contents \"added contributors' names, closes #3\", you would pass in the following string:\n",
|
||||
"\n",
|
||||
"README updates\n",
|
||||
"\n",
|
||||
"added contributors' names, closes #3, args: {'formatted_pr': {'title': 'Formatted Pr', 'description': 'Follow the required formatting.', 'type': 'string'}}\n",
|
||||
"List Pull Requests' Files: \n",
|
||||
"This tool will fetch the full text of all files in a pull request (PR) given the PR number as an input. This is useful for understanding the code changes in a PR or contributing to it. **VERY IMPORTANT**: You must specify the PR number as an integer input parameter., args: {'pr_number': {'title': 'Pr Number', 'description': 'The PR number as an integer, e.g. `12`', 'default': 0, 'type': 'integer'}}\n",
|
||||
"Create File: \n",
|
||||
"This tool is a wrapper for the GitHub API, useful when you need to create a file in a GitHub repository. **VERY IMPORTANT**: Your input to this tool MUST strictly follow these rules:\n",
|
||||
"\n",
|
||||
"- First you must specify which file to create by passing a full file path (**IMPORTANT**: the path must not start with a slash)\n",
|
||||
"- Then you must specify the contents of the file\n",
|
||||
"\n",
|
||||
"For example, if you would like to create a file called /test/test.txt with contents \"test contents\", you would pass in the following string:\n",
|
||||
"\n",
|
||||
"test/test.txt\n",
|
||||
"\n",
|
||||
"test contents, args: {'formatted_file': {'title': 'Formatted File', 'description': 'Follow the required formatting.', 'type': 'string'}}\n",
|
||||
"Read File: \n",
|
||||
"This tool is a wrapper for the GitHub API, useful when you need to read the contents of a file. Simply pass in the full file path of the file you would like to read. **IMPORTANT**: the path must not start with a slash, args: {'formatted_filepath': {'title': 'Formatted Filepath', 'description': 'The full file path of the file you would like to read where the path must NOT start with a slash, e.g. `some_dir/my_file.py`.', 'type': 'string'}}\n",
|
||||
"Update File: \n",
|
||||
"This tool is a wrapper for the GitHub API, useful when you need to update the contents of a file in a GitHub repository. **VERY IMPORTANT**: Your input to this tool MUST strictly follow these rules:\n",
|
||||
"\n",
|
||||
"- First you must specify which file to modify by passing a full file path (**IMPORTANT**: the path must not start with a slash)\n",
|
||||
"- Then you must specify the old contents which you would like to replace wrapped in OLD <<<< and >>>> OLD\n",
|
||||
"- Then you must specify the new contents which you would like to replace the old contents with wrapped in NEW <<<< and >>>> NEW\n",
|
||||
"\n",
|
||||
"For example, if you would like to replace the contents of the file /test/test.txt from \"old contents\" to \"new contents\", you would pass in the following string:\n",
|
||||
"\n",
|
||||
"test/test.txt\n",
|
||||
"\n",
|
||||
"This is text that will not be changed\n",
|
||||
"OLD <<<<\n",
|
||||
"old contents\n",
|
||||
">>>> OLD\n",
|
||||
"NEW <<<<\n",
|
||||
"new contents\n",
|
||||
">>>> NEW, args: {'formatted_file_update': {'title': 'Formatted File Update', 'description': 'Strictly follow the provided rules.', 'type': 'string'}}\n",
|
||||
"Delete File: \n",
|
||||
"This tool is a wrapper for the GitHub API, useful when you need to delete a file in a GitHub repository. Simply pass in the full file path of the file you would like to delete. **IMPORTANT**: the path must not start with a slash, args: {'formatted_filepath': {'title': 'Formatted Filepath', 'description': 'The full file path of the file you would like to delete where the path must NOT start with a slash, e.g. `some_dir/my_file.py`. Only input a string, not the param name.', 'type': 'string'}}\n",
|
||||
"Overview of existing files in Main branch: \n",
|
||||
"This tool will provide an overview of all existing files in the main branch of the repository. It will list the file names, their respective paths, and a brief summary of their contents. This can be useful for understanding the structure and content of the repository, especially when navigating through large codebases. No input parameters are required., args: {'no_input': {'title': 'No Input', 'description': 'No input required, e.g. `` (empty string).', 'default': '', 'type': 'string'}}\n",
|
||||
"Overview of files in current working branch: \n",
|
||||
"This tool will provide an overview of all files in your current working branch where you should implement changes. This is great for getting a high level overview of the structure of your code. No input parameters are required., args: {'no_input': {'title': 'No Input', 'description': 'No input required, e.g. `` (empty string).', 'default': '', 'type': 'string'}}\n",
|
||||
"List branches in this repository: \n",
|
||||
"This tool will fetch a list of all branches in the repository. It will return the name of each branch. No input parameters are required., args: {'no_input': {'title': 'No Input', 'description': 'No input required, e.g. `` (empty string).', 'default': '', 'type': 'string'}}\n",
|
||||
"Set active branch: \n",
|
||||
"This tool will set the active branch in the repository, similar to `git checkout <branch_name>` and `git switch -c <branch_name>`. **VERY IMPORTANT**: You must specify the name of the branch as a string input parameter., args: {'branch_name': {'title': 'Branch Name', 'description': 'The name of the branch, e.g. `my_branch`.', 'type': 'string'}}\n",
|
||||
"Create a new branch: \n",
|
||||
"This tool will create a new branch in the repository. **VERY IMPORTANT**: You must specify the name of the new branch as a string input parameter., args: {'branch_name': {'title': 'Branch Name', 'description': 'The name of the branch, e.g. `my_branch`.', 'type': 'string'}}\n",
|
||||
"Get files from a directory: \n",
|
||||
"This tool will fetch a list of all files in a specified directory. **VERY IMPORTANT**: You must specify the path of the directory as a string input parameter., args: {'input': {'title': 'Input', 'description': 'The path of the directory, e.g. `some_dir/inner_dir`. Only input a string, do not include the parameter name.', 'default': '', 'type': 'string'}}\n",
|
||||
"Search issues and pull requests: \n",
|
||||
"This tool will search for issues and pull requests in the repository. **VERY IMPORTANT**: You must specify the search query as a string input parameter., args: {'search_query': {'title': 'Search Query', 'description': 'Natural language search query, e.g. `My issue title or topic`.', 'type': 'string'}}\n",
|
||||
"Search code: \n",
|
||||
"This tool will search for code in the repository. **VERY IMPORTANT**: You must specify the search query as a string input parameter., args: {'search_query': {'title': 'Search Query', 'description': 'A keyword-focused natural language search query for code, e.g. `MyFunctionName()`.', 'type': 'string'}}\n",
|
||||
"Create review request: \n",
|
||||
"This tool will create a review request on the open pull request that matches the current active branch. **VERY IMPORTANT**: You must specify the username of the person who is being requested as a string input parameter., args: {'username': {'title': 'Username', 'description': 'GitHub username of the user being requested, e.g. `my_username`.', 'type': 'string'}}\n"
|
||||
]
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"from langchain.tools.render import render_text_description_and_args\n",
|
||||
"\n",
|
||||
"print(render_text_description_and_args(tools))"
|
||||
]
|
||||
},
|
||||
{
|
||||
"cell_type": "markdown",
|
||||
"metadata": {},
|
||||
"source": [
|
||||
"## Example: Agent with Search\n",
|
||||
"\n",
|
||||
"If your agent does not need to use all 8 tools, you can build tools individually to use. For this example, we'll make an agent that does not use the create_file, delete_file or create_pull_request tools, but can also use duckduckgo-search."
|
||||
]
|
||||
@ -382,7 +840,7 @@
|
||||
"name": "python",
|
||||
"nbconvert_exporter": "python",
|
||||
"pygments_lexer": "ipython3",
|
||||
"version": "3.10.12"
|
||||
"version": "3.10.13"
|
||||
}
|
||||
},
|
||||
"nbformat": 4,
|
||||
|
||||
@ -1,22 +1,129 @@
|
||||
"""GitHub Toolkit."""
|
||||
from typing import Dict, List
|
||||
|
||||
from langchain_core.pydantic_v1 import BaseModel
|
||||
|
||||
from langchain.agents.agent_toolkits.base import BaseToolkit
|
||||
from langchain.pydantic_v1 import Field
|
||||
from langchain.tools import BaseTool
|
||||
from langchain.tools.github.prompt import (
|
||||
COMMENT_ON_ISSUE_PROMPT,
|
||||
CREATE_BRANCH_PROMPT,
|
||||
CREATE_FILE_PROMPT,
|
||||
CREATE_PULL_REQUEST_PROMPT,
|
||||
CREATE_REVIEW_REQUEST_PROMPT,
|
||||
DELETE_FILE_PROMPT,
|
||||
GET_FILES_FROM_DIRECTORY_PROMPT,
|
||||
GET_ISSUE_PROMPT,
|
||||
GET_ISSUES_PROMPT,
|
||||
GET_PR_PROMPT,
|
||||
LIST_BRANCHES_IN_REPO_PROMPT,
|
||||
LIST_PRS_PROMPT,
|
||||
LIST_PULL_REQUEST_FILES,
|
||||
OVERVIEW_EXISTING_FILES_BOT_BRANCH,
|
||||
OVERVIEW_EXISTING_FILES_IN_MAIN,
|
||||
READ_FILE_PROMPT,
|
||||
SEARCH_CODE_PROMPT,
|
||||
SEARCH_ISSUES_AND_PRS_PROMPT,
|
||||
SET_ACTIVE_BRANCH_PROMPT,
|
||||
UPDATE_FILE_PROMPT,
|
||||
)
|
||||
from langchain.tools.github.tool import GitHubAction
|
||||
from langchain.utilities.github import GitHubAPIWrapper
|
||||
|
||||
|
||||
class NoInput(BaseModel):
|
||||
no_input: str = Field("", description="No input required, e.g. `` (empty string).")
|
||||
|
||||
|
||||
class GetIssue(BaseModel):
|
||||
issue_number: int = Field(0, description="Issue number as an integer, e.g. `42`")
|
||||
|
||||
|
||||
class CommentOnIssue(BaseModel):
|
||||
input: str = Field(..., description="Follow the required formatting.")
|
||||
|
||||
|
||||
class GetPR(BaseModel):
|
||||
pr_number: int = Field(0, description="The PR number as an integer, e.g. `12`")
|
||||
|
||||
|
||||
class CreatePR(BaseModel):
|
||||
formatted_pr: str = Field(..., description="Follow the required formatting.")
|
||||
|
||||
|
||||
class CreateFile(BaseModel):
|
||||
formatted_file: str = Field(..., description="Follow the required formatting.")
|
||||
|
||||
|
||||
class ReadFile(BaseModel):
|
||||
formatted_filepath: str = Field(
|
||||
...,
|
||||
description=(
|
||||
"The full file path of the file you would like to read where the "
|
||||
"path must NOT start with a slash, e.g. `some_dir/my_file.py`."
|
||||
),
|
||||
)
|
||||
|
||||
|
||||
class UpdateFile(BaseModel):
|
||||
formatted_file_update: str = Field(
|
||||
..., description="Strictly follow the provided rules."
|
||||
)
|
||||
|
||||
|
||||
class DeleteFile(BaseModel):
|
||||
formatted_filepath: str = Field(
|
||||
...,
|
||||
description=(
|
||||
"The full file path of the file you would like to delete"
|
||||
" where the path must NOT start with a slash, e.g."
|
||||
" `some_dir/my_file.py`. Only input a string,"
|
||||
" not the param name."
|
||||
),
|
||||
)
|
||||
|
||||
|
||||
class DirectoryPath(BaseModel):
|
||||
input: str = Field(
|
||||
"",
|
||||
description=(
|
||||
"The path of the directory, e.g. `some_dir/inner_dir`."
|
||||
" Only input a string, do not include the parameter name."
|
||||
),
|
||||
)
|
||||
|
||||
|
||||
class BranchName(BaseModel):
|
||||
branch_name: str = Field(
|
||||
..., description="The name of the branch, e.g. `my_branch`."
|
||||
)
|
||||
|
||||
|
||||
class SearchCode(BaseModel):
|
||||
search_query: str = Field(
|
||||
...,
|
||||
description=(
|
||||
"A keyword-focused natural language search"
|
||||
"query for code, e.g. `MyFunctionName()`."
|
||||
),
|
||||
)
|
||||
|
||||
|
||||
class CreateReviewRequest(BaseModel):
|
||||
username: str = Field(
|
||||
...,
|
||||
description="GitHub username of the user being requested, e.g. `my_username`.",
|
||||
)
|
||||
|
||||
|
||||
class SearchIssuesAndPRs(BaseModel):
|
||||
search_query: str = Field(
|
||||
...,
|
||||
description="Natural language search query, e.g. `My issue title or topic`.",
|
||||
)
|
||||
|
||||
|
||||
class GitHubToolkit(BaseToolkit):
|
||||
"""GitHub Toolkit.
|
||||
|
||||
@ -41,41 +148,127 @@ class GitHubToolkit(BaseToolkit):
|
||||
"mode": "get_issues",
|
||||
"name": "Get Issues",
|
||||
"description": GET_ISSUES_PROMPT,
|
||||
"args_schema": NoInput,
|
||||
},
|
||||
{
|
||||
"mode": "get_issue",
|
||||
"name": "Get Issue",
|
||||
"description": GET_ISSUE_PROMPT,
|
||||
"args_schema": GetIssue,
|
||||
},
|
||||
{
|
||||
"mode": "comment_on_issue",
|
||||
"name": "Comment on Issue",
|
||||
"description": COMMENT_ON_ISSUE_PROMPT,
|
||||
"args_schema": CommentOnIssue,
|
||||
},
|
||||
{
|
||||
"mode": "list_open_pull_requests",
|
||||
"name": "List open pull requests (PRs)",
|
||||
"description": LIST_PRS_PROMPT,
|
||||
"args_schema": NoInput,
|
||||
},
|
||||
{
|
||||
"mode": "get_pull_request",
|
||||
"name": "Get Pull Request",
|
||||
"description": GET_PR_PROMPT,
|
||||
"args_schema": GetPR,
|
||||
},
|
||||
{
|
||||
"mode": "list_pull_request_files",
|
||||
"name": "Overview of files included in PR",
|
||||
"description": LIST_PULL_REQUEST_FILES,
|
||||
"args_schema": GetPR,
|
||||
},
|
||||
{
|
||||
"mode": "create_pull_request",
|
||||
"name": "Create Pull Request",
|
||||
"description": CREATE_PULL_REQUEST_PROMPT,
|
||||
"args_schema": CreatePR,
|
||||
},
|
||||
{
|
||||
"mode": "list_pull_request_files",
|
||||
"name": "List Pull Requests' Files",
|
||||
"description": LIST_PULL_REQUEST_FILES,
|
||||
"args_schema": GetPR,
|
||||
},
|
||||
{
|
||||
"mode": "create_file",
|
||||
"name": "Create File",
|
||||
"description": CREATE_FILE_PROMPT,
|
||||
"args_schema": CreateFile,
|
||||
},
|
||||
{
|
||||
"mode": "read_file",
|
||||
"name": "Read File",
|
||||
"description": READ_FILE_PROMPT,
|
||||
"args_schema": ReadFile,
|
||||
},
|
||||
{
|
||||
"mode": "update_file",
|
||||
"name": "Update File",
|
||||
"description": UPDATE_FILE_PROMPT,
|
||||
"args_schema": UpdateFile,
|
||||
},
|
||||
{
|
||||
"mode": "delete_file",
|
||||
"name": "Delete File",
|
||||
"description": DELETE_FILE_PROMPT,
|
||||
"args_schema": DeleteFile,
|
||||
},
|
||||
{
|
||||
"mode": "list_files_in_main_branch",
|
||||
"name": "Overview of existing files in Main branch",
|
||||
"description": OVERVIEW_EXISTING_FILES_IN_MAIN,
|
||||
"args_schema": NoInput,
|
||||
},
|
||||
{
|
||||
"mode": "list_files_in_bot_branch",
|
||||
"name": "Overview of files in current working branch",
|
||||
"description": OVERVIEW_EXISTING_FILES_BOT_BRANCH,
|
||||
"args_schema": NoInput,
|
||||
},
|
||||
{
|
||||
"mode": "list_branches_in_repo",
|
||||
"name": "List branches in this repository",
|
||||
"description": LIST_BRANCHES_IN_REPO_PROMPT,
|
||||
"args_schema": NoInput,
|
||||
},
|
||||
{
|
||||
"mode": "set_active_branch",
|
||||
"name": "Set active branch",
|
||||
"description": SET_ACTIVE_BRANCH_PROMPT,
|
||||
"args_schema": BranchName,
|
||||
},
|
||||
{
|
||||
"mode": "create_branch",
|
||||
"name": "Create a new branch",
|
||||
"description": CREATE_BRANCH_PROMPT,
|
||||
"args_schema": BranchName,
|
||||
},
|
||||
{
|
||||
"mode": "get_files_from_directory",
|
||||
"name": "Get files from a directory",
|
||||
"description": GET_FILES_FROM_DIRECTORY_PROMPT,
|
||||
"args_schema": DirectoryPath,
|
||||
},
|
||||
{
|
||||
"mode": "search_issues_and_prs",
|
||||
"name": "Search issues and pull requests",
|
||||
"description": SEARCH_ISSUES_AND_PRS_PROMPT,
|
||||
"args_schema": SearchIssuesAndPRs,
|
||||
},
|
||||
{
|
||||
"mode": "search_code",
|
||||
"name": "Search code",
|
||||
"description": SEARCH_CODE_PROMPT,
|
||||
"args_schema": SearchCode,
|
||||
},
|
||||
{
|
||||
"mode": "create_review_request",
|
||||
"name": "Create review request",
|
||||
"description": CREATE_REVIEW_REQUEST_PROMPT,
|
||||
"args_schema": CreateReviewRequest,
|
||||
},
|
||||
]
|
||||
tools = [
|
||||
@ -84,6 +277,7 @@ class GitHubToolkit(BaseToolkit):
|
||||
description=action["description"],
|
||||
mode=action["mode"],
|
||||
api_wrapper=github_api_wrapper,
|
||||
args_schema=action.get("args_schema", None),
|
||||
)
|
||||
for action in operations
|
||||
]
|
||||
|
||||
@ -1,19 +1,17 @@
|
||||
# flake8: noqa
|
||||
GET_ISSUES_PROMPT = """
|
||||
This tool will fetch a list of the repository's issues. It will return the title, and issue number of 5 issues. It takes no input.
|
||||
"""
|
||||
This tool will fetch a list of the repository's issues. It will return the title, and issue number of 5 issues. It takes no input."""
|
||||
|
||||
GET_ISSUE_PROMPT = """
|
||||
This tool will fetch the title, body, and comment thread of a specific issue. **VERY IMPORTANT**: You must specify the issue number as an integer.
|
||||
"""
|
||||
This tool will fetch the title, body, and comment thread of a specific issue. **VERY IMPORTANT**: You must specify the issue number as an integer."""
|
||||
|
||||
COMMENT_ON_ISSUE_PROMPT = """
|
||||
This tool is useful when you need to comment on a GitHub issue. Simply pass in the issue number and the comment you would like to make. Please use this sparingly as we don't want to clutter the comment threads. **VERY IMPORTANT**: Your input to this tool MUST strictly follow these rules:
|
||||
|
||||
- First you must specify the issue number as an integer
|
||||
- Then you must place two newlines
|
||||
- Then you must specify your comment
|
||||
"""
|
||||
- Then you must specify your comment"""
|
||||
|
||||
CREATE_PULL_REQUEST_PROMPT = """
|
||||
This tool is useful when you need to create a new pull request in a GitHub repository. **VERY IMPORTANT**: Your input to this tool MUST strictly follow these rules:
|
||||
|
||||
@ -21,13 +19,13 @@ This tool is useful when you need to create a new pull request in a GitHub repos
|
||||
- Then you must place two newlines
|
||||
- Then you must write the body or description of the pull request
|
||||
|
||||
To reference an issue in the body, put its issue number directly after a #.
|
||||
For example, if you would like to create a pull request called "README updates" with contents "added contributors' names, closes issue #3", you would pass in the following string:
|
||||
When appropriate, always reference relevant issues in the body by using the syntax `closes #<issue_number` like `closes #3, closes #6`.
|
||||
For example, if you would like to create a pull request called "README updates" with contents "added contributors' names, closes #3", you would pass in the following string:
|
||||
|
||||
README updates
|
||||
|
||||
added contributors' names, closes issue #3
|
||||
"""
|
||||
added contributors' names, closes #3"""
|
||||
|
||||
CREATE_FILE_PROMPT = """
|
||||
This tool is a wrapper for the GitHub API, useful when you need to create a file in a GitHub repository. **VERY IMPORTANT**: Your input to this tool MUST strictly follow these rules:
|
||||
|
||||
@ -38,12 +36,10 @@ For example, if you would like to create a file called /test/test.txt with conte
|
||||
|
||||
test/test.txt
|
||||
|
||||
test contents
|
||||
"""
|
||||
test contents"""
|
||||
|
||||
READ_FILE_PROMPT = """
|
||||
This tool is a wrapper for the GitHub API, useful when you need to read the contents of a file in a GitHub repository. Simply pass in the full file path of the file you would like to read. **IMPORTANT**: the path must not start with a slash
|
||||
"""
|
||||
This tool is a wrapper for the GitHub API, useful when you need to read the contents of a file. Simply pass in the full file path of the file you would like to read. **IMPORTANT**: the path must not start with a slash"""
|
||||
|
||||
UPDATE_FILE_PROMPT = """
|
||||
This tool is a wrapper for the GitHub API, useful when you need to update the contents of a file in a GitHub repository. **VERY IMPORTANT**: Your input to this tool MUST strictly follow these rules:
|
||||
@ -62,9 +58,43 @@ old contents
|
||||
>>>> OLD
|
||||
NEW <<<<
|
||||
new contents
|
||||
>>>> NEW
|
||||
"""
|
||||
>>>> NEW"""
|
||||
|
||||
DELETE_FILE_PROMPT = """
|
||||
This tool is a wrapper for the GitHub API, useful when you need to delete a file in a GitHub repository. Simply pass in the full file path of the file you would like to delete. **IMPORTANT**: the path must not start with a slash
|
||||
"""
|
||||
This tool is a wrapper for the GitHub API, useful when you need to delete a file in a GitHub repository. Simply pass in the full file path of the file you would like to delete. **IMPORTANT**: the path must not start with a slash"""
|
||||
|
||||
GET_PR_PROMPT = """
|
||||
This tool will fetch the title, body, comment thread and commit history of a specific Pull Request (by PR number). **VERY IMPORTANT**: You must specify the PR number as an integer."""
|
||||
|
||||
LIST_PRS_PROMPT = """
|
||||
This tool will fetch a list of the repository's Pull Requests (PRs). It will return the title, and PR number of 5 PRs. It takes no input."""
|
||||
|
||||
LIST_PULL_REQUEST_FILES = """
|
||||
This tool will fetch the full text of all files in a pull request (PR) given the PR number as an input. This is useful for understanding the code changes in a PR or contributing to it. **VERY IMPORTANT**: You must specify the PR number as an integer input parameter."""
|
||||
|
||||
OVERVIEW_EXISTING_FILES_IN_MAIN = """
|
||||
This tool will provide an overview of all existing files in the main branch of the repository. It will list the file names, their respective paths, and a brief summary of their contents. This can be useful for understanding the structure and content of the repository, especially when navigating through large codebases. No input parameters are required."""
|
||||
|
||||
OVERVIEW_EXISTING_FILES_BOT_BRANCH = """
|
||||
This tool will provide an overview of all files in your current working branch where you should implement changes. This is great for getting a high level overview of the structure of your code. No input parameters are required."""
|
||||
|
||||
SEARCH_ISSUES_AND_PRS_PROMPT = """
|
||||
This tool will search for issues and pull requests in the repository. **VERY IMPORTANT**: You must specify the search query as a string input parameter."""
|
||||
|
||||
SEARCH_CODE_PROMPT = """
|
||||
This tool will search for code in the repository. **VERY IMPORTANT**: You must specify the search query as a string input parameter."""
|
||||
|
||||
CREATE_REVIEW_REQUEST_PROMPT = """
|
||||
This tool will create a review request on the open pull request that matches the current active branch. **VERY IMPORTANT**: You must specify the username of the person who is being requested as a string input parameter."""
|
||||
|
||||
LIST_BRANCHES_IN_REPO_PROMPT = """
|
||||
This tool will fetch a list of all branches in the repository. It will return the name of each branch. No input parameters are required."""
|
||||
|
||||
SET_ACTIVE_BRANCH_PROMPT = """
|
||||
This tool will set the active branch in the repository, similar to `git checkout <branch_name>` and `git switch -c <branch_name>`. **VERY IMPORTANT**: You must specify the name of the branch as a string input parameter."""
|
||||
|
||||
CREATE_BRANCH_PROMPT = """
|
||||
This tool will create a new branch in the repository. **VERY IMPORTANT**: You must specify the name of the new branch as a string input parameter."""
|
||||
|
||||
GET_FILES_FROM_DIRECTORY_PROMPT = """
|
||||
This tool will fetch a list of all files in a specified directory. **VERY IMPORTANT**: You must specify the path of the directory as a string input parameter."""
|
||||
|
||||
@ -7,9 +7,9 @@ To use this tool, you must first set as environment variables:
|
||||
GITHUB_REPOSITORY -> format: {owner}/{repo}
|
||||
|
||||
"""
|
||||
from typing import Optional
|
||||
from typing import Optional, Type
|
||||
|
||||
from langchain_core.pydantic_v1 import Field
|
||||
from langchain_core.pydantic_v1 import BaseModel, Field
|
||||
|
||||
from langchain.callbacks.manager import CallbackManagerForToolRun
|
||||
from langchain.tools.base import BaseTool
|
||||
@ -23,11 +23,15 @@ class GitHubAction(BaseTool):
|
||||
mode: str
|
||||
name: str = ""
|
||||
description: str = ""
|
||||
args_schema: Optional[Type[BaseModel]] = None
|
||||
|
||||
def _run(
|
||||
self,
|
||||
instructions: str,
|
||||
instructions: Optional[str] = "",
|
||||
run_manager: Optional[CallbackManagerForToolRun] = None,
|
||||
) -> str:
|
||||
"""Use the GitHub API to run an operation."""
|
||||
if not instructions or instructions == "{}":
|
||||
# Catch other forms of empty input that GPT-4 likes to send.
|
||||
instructions = ""
|
||||
return self.api_wrapper.run(self.mode, instructions)
|
||||
|
||||
@ -4,12 +4,15 @@ from __future__ import annotations
|
||||
import json
|
||||
from typing import TYPE_CHECKING, Any, Dict, List, Optional
|
||||
|
||||
import requests
|
||||
import tiktoken
|
||||
from langchain_core.pydantic_v1 import BaseModel, Extra, root_validator
|
||||
|
||||
from langchain.utils import get_from_dict_or_env
|
||||
|
||||
if TYPE_CHECKING:
|
||||
from github.Issue import Issue
|
||||
from github.PullRequest import PullRequest
|
||||
|
||||
|
||||
class GitHubAPIWrapper(BaseModel):
|
||||
@ -20,7 +23,7 @@ class GitHubAPIWrapper(BaseModel):
|
||||
github_repository: Optional[str] = None
|
||||
github_app_id: Optional[str] = None
|
||||
github_app_private_key: Optional[str] = None
|
||||
github_branch: Optional[str] = None
|
||||
active_branch: Optional[str] = None
|
||||
github_base_branch: Optional[str] = None
|
||||
|
||||
class Config:
|
||||
@ -41,13 +44,6 @@ class GitHubAPIWrapper(BaseModel):
|
||||
values, "github_app_private_key", "GITHUB_APP_PRIVATE_KEY"
|
||||
)
|
||||
|
||||
github_branch = get_from_dict_or_env(
|
||||
values, "github_branch", "GITHUB_BRANCH", default="master"
|
||||
)
|
||||
github_base_branch = get_from_dict_or_env(
|
||||
values, "github_base_branch", "GITHUB_BASE_BRANCH", default="master"
|
||||
)
|
||||
|
||||
try:
|
||||
from github import Auth, GithubIntegration
|
||||
|
||||
@ -57,8 +53,13 @@ class GitHubAPIWrapper(BaseModel):
|
||||
"Please install it with `pip install PyGithub`"
|
||||
)
|
||||
|
||||
with open(github_app_private_key, "r") as f:
|
||||
private_key = f.read()
|
||||
try:
|
||||
# interpret the key as a file path
|
||||
# fallback to interpreting as the key itself
|
||||
with open(github_app_private_key, "r") as f:
|
||||
private_key = f.read()
|
||||
except Exception:
|
||||
private_key = github_app_private_key
|
||||
|
||||
auth = Auth.AppAuth(
|
||||
github_app_id,
|
||||
@ -69,13 +70,28 @@ class GitHubAPIWrapper(BaseModel):
|
||||
|
||||
# create a GitHub instance:
|
||||
g = installation.get_github_for_installation()
|
||||
repo = g.get_repo(github_repository)
|
||||
|
||||
github_base_branch = get_from_dict_or_env(
|
||||
values,
|
||||
"github_base_branch",
|
||||
"GITHUB_BASE_BRANCH",
|
||||
default=repo.default_branch,
|
||||
)
|
||||
|
||||
active_branch = get_from_dict_or_env(
|
||||
values,
|
||||
"active_branch",
|
||||
"ACTIVE_BRANCH",
|
||||
default=repo.default_branch,
|
||||
)
|
||||
|
||||
values["github"] = g
|
||||
values["github_repo_instance"] = g.get_repo(github_repository)
|
||||
values["github_repo_instance"] = repo
|
||||
values["github_repository"] = github_repository
|
||||
values["github_app_id"] = github_app_id
|
||||
values["github_app_private_key"] = github_app_private_key
|
||||
values["github_branch"] = github_branch
|
||||
values["active_branch"] = active_branch
|
||||
values["github_base_branch"] = github_base_branch
|
||||
|
||||
return values
|
||||
@ -92,19 +108,45 @@ class GitHubAPIWrapper(BaseModel):
|
||||
for issue in issues:
|
||||
title = issue.title
|
||||
number = issue.number
|
||||
parsed.append({"title": title, "number": number})
|
||||
opened_by = issue.user.login if issue.user else None
|
||||
issue_dict = {"title": title, "number": number}
|
||||
if opened_by is not None:
|
||||
issue_dict["opened_by"] = opened_by
|
||||
parsed.append(issue_dict)
|
||||
return parsed
|
||||
|
||||
def parse_pull_requests(self, pull_requests: List[PullRequest]) -> List[dict]:
|
||||
"""
|
||||
Extracts title and number from each Issue and puts them in a dictionary
|
||||
Parameters:
|
||||
issues(List[Issue]): A list of Github Issue objects
|
||||
Returns:
|
||||
List[dict]: A dictionary of issue titles and numbers
|
||||
"""
|
||||
parsed = []
|
||||
for pr in pull_requests:
|
||||
parsed.append(
|
||||
{
|
||||
"title": pr.title,
|
||||
"number": pr.number,
|
||||
"commits": str(pr.commits),
|
||||
"comments": str(pr.comments),
|
||||
}
|
||||
)
|
||||
return parsed
|
||||
|
||||
def get_issues(self) -> str:
|
||||
"""
|
||||
Fetches all open issues from the repo
|
||||
Fetches all open issues from the repo excluding pull requests
|
||||
|
||||
Returns:
|
||||
str: A plaintext report containing the number of issues
|
||||
and each issue's title and number.
|
||||
"""
|
||||
issues = self.github_repo_instance.get_issues(state="open")
|
||||
if issues.totalCount > 0:
|
||||
# Filter out pull requests (part of GH issues object)
|
||||
issues = [issue for issue in issues if not issue.pull_request]
|
||||
if issues:
|
||||
parsed_issues = self.parse_issues(issues)
|
||||
parsed_issues_str = (
|
||||
"Found " + str(len(parsed_issues)) + " issues:\n" + str(parsed_issues)
|
||||
@ -113,14 +155,201 @@ class GitHubAPIWrapper(BaseModel):
|
||||
else:
|
||||
return "No open issues available"
|
||||
|
||||
def list_open_pull_requests(self) -> str:
|
||||
"""
|
||||
Fetches all open PRs from the repo
|
||||
|
||||
Returns:
|
||||
str: A plaintext report containing the number of PRs
|
||||
and each PR's title and number.
|
||||
"""
|
||||
# issues = self.github_repo_instance.get_issues(state="open")
|
||||
pull_requests = self.github_repo_instance.get_pulls(state="open")
|
||||
if pull_requests.totalCount > 0:
|
||||
parsed_prs = self.parse_pull_requests(pull_requests)
|
||||
parsed_prs_str = (
|
||||
"Found " + str(len(parsed_prs)) + " pull requests:\n" + str(parsed_prs)
|
||||
)
|
||||
return parsed_prs_str
|
||||
else:
|
||||
return "No open pull requests available"
|
||||
|
||||
def list_files_in_main_branch(self) -> str:
|
||||
"""
|
||||
Fetches all files in the main branch of the repo.
|
||||
|
||||
Returns:
|
||||
str: A plaintext report containing the paths and names of the files.
|
||||
"""
|
||||
files: List[str] = []
|
||||
try:
|
||||
contents = self.github_repo_instance.get_contents(
|
||||
"", ref=self.github_base_branch
|
||||
)
|
||||
for content in contents:
|
||||
if content.type == "dir":
|
||||
files.extend(self.get_files_from_directory(content.path))
|
||||
else:
|
||||
files.append(content.path)
|
||||
|
||||
if files:
|
||||
files_str = "\n".join(files)
|
||||
return f"Found {len(files)} files in the main branch:\n{files_str}"
|
||||
else:
|
||||
return "No files found in the main branch"
|
||||
except Exception as e:
|
||||
return str(e)
|
||||
|
||||
def set_active_branch(self, branch_name: str) -> str:
|
||||
"""Equivalent to `git checkout branch_name` for this Agent.
|
||||
Clones formatting from Github.
|
||||
|
||||
Returns an Error (as a string) if branch doesn't exist.
|
||||
"""
|
||||
curr_branches = [
|
||||
branch.name for branch in self.github_repo_instance.get_branches()
|
||||
]
|
||||
if branch_name in curr_branches:
|
||||
self.active_branch = branch_name
|
||||
return f"Switched to branch `{branch_name}`"
|
||||
else:
|
||||
return (
|
||||
f"Error {branch_name} does not exist,"
|
||||
f"in repo with current branches: {str(curr_branches)}"
|
||||
)
|
||||
|
||||
def list_branches_in_repo(self) -> str:
|
||||
"""
|
||||
Fetches a list of all branches in the repository.
|
||||
|
||||
Returns:
|
||||
str: A plaintext report containing the names of the branches.
|
||||
"""
|
||||
try:
|
||||
branches = [
|
||||
branch.name for branch in self.github_repo_instance.get_branches()
|
||||
]
|
||||
if branches:
|
||||
branches_str = "\n".join(branches)
|
||||
return (
|
||||
f"Found {len(branches)} branches in the repository:"
|
||||
f"\n{branches_str}"
|
||||
)
|
||||
else:
|
||||
return "No branches found in the repository"
|
||||
except Exception as e:
|
||||
return str(e)
|
||||
|
||||
def create_branch(self, proposed_branch_name: str) -> str:
|
||||
"""
|
||||
Create a new branch, and set it as the active bot branch.
|
||||
Equivalent to `git switch -c proposed_branch_name`
|
||||
If the proposed branch already exists, we append _v1 then _v2...
|
||||
until a unique name is found.
|
||||
|
||||
Returns:
|
||||
str: A plaintext success message.
|
||||
"""
|
||||
from github import GithubException
|
||||
|
||||
i = 0
|
||||
new_branch_name = proposed_branch_name
|
||||
base_branch = self.github_repo_instance.get_branch(
|
||||
self.github_repo_instance.default_branch
|
||||
)
|
||||
for i in range(1000):
|
||||
try:
|
||||
self.github_repo_instance.create_git_ref(
|
||||
ref=f"refs/heads/{new_branch_name}", sha=base_branch.commit.sha
|
||||
)
|
||||
self.active_branch = new_branch_name
|
||||
return (
|
||||
f"Branch '{new_branch_name}' "
|
||||
"created successfully, and set as current active branch."
|
||||
)
|
||||
except GithubException as e:
|
||||
if e.status == 422 and "Reference already exists" in e.data["message"]:
|
||||
i += 1
|
||||
new_branch_name = f"{proposed_branch_name}_v{i}"
|
||||
else:
|
||||
# Handle any other exceptions
|
||||
print(f"Failed to create branch. Error: {e}")
|
||||
raise Exception(
|
||||
"Unable to create branch name from proposed_branch_name: "
|
||||
f"{proposed_branch_name}"
|
||||
)
|
||||
return (
|
||||
"Unable to create branch. "
|
||||
"At least 1000 branches exist with named derived from "
|
||||
f"proposed_branch_name: `{proposed_branch_name}`"
|
||||
)
|
||||
|
||||
def list_files_in_bot_branch(self) -> str:
|
||||
"""
|
||||
Fetches all files in the active branch of the repo,
|
||||
the branch the bot uses to make changes.
|
||||
|
||||
Returns:
|
||||
str: A plaintext list containing the the filepaths in the branch.
|
||||
"""
|
||||
files: List[str] = []
|
||||
try:
|
||||
contents = self.github_repo_instance.get_contents(
|
||||
"", ref=self.active_branch
|
||||
)
|
||||
for content in contents:
|
||||
if content.type == "dir":
|
||||
files.extend(self.get_files_from_directory(content.path))
|
||||
else:
|
||||
files.append(content.path)
|
||||
|
||||
if files:
|
||||
files_str = "\n".join(files)
|
||||
return (
|
||||
f"Found {len(files)} files in branch `{self.active_branch}`:\n"
|
||||
f"{files_str}"
|
||||
)
|
||||
else:
|
||||
return f"No files found in branch: `{self.active_branch}`"
|
||||
except Exception as e:
|
||||
return f"Error: {e}"
|
||||
|
||||
def get_files_from_directory(self, directory_path: str) -> str:
|
||||
"""
|
||||
Recursively fetches files from a directory in the repo.
|
||||
|
||||
Parameters:
|
||||
directory_path (str): Path to the directory
|
||||
|
||||
Returns:
|
||||
str: List of file paths, or an error message.
|
||||
"""
|
||||
from github import GithubException
|
||||
|
||||
files: List[str] = []
|
||||
try:
|
||||
contents = self.github_repo_instance.get_contents(
|
||||
directory_path, ref=self.active_branch
|
||||
)
|
||||
except GithubException as e:
|
||||
return f"Error: status code {e.status}, {e.message}"
|
||||
|
||||
for content in contents:
|
||||
if content.type == "dir":
|
||||
files.extend(self.get_files_from_directory(content.path))
|
||||
else:
|
||||
files.append(content.path)
|
||||
return str(files)
|
||||
|
||||
def get_issue(self, issue_number: int) -> Dict[str, Any]:
|
||||
"""
|
||||
Fetches a specific issue and its first 10 comments
|
||||
Parameters:
|
||||
issue_number(int): The number for the github issue
|
||||
Returns:
|
||||
dict: A doctionary containing the issue's title,
|
||||
body, and comments as a string
|
||||
dict: A dictionary containing the issue's title,
|
||||
body, comments as a string, and the username of the user
|
||||
who opened the issue
|
||||
"""
|
||||
issue = self.github_repo_instance.get_issue(number=issue_number)
|
||||
page = 0
|
||||
@ -133,12 +362,142 @@ class GitHubAPIWrapper(BaseModel):
|
||||
comments.append({"body": comment.body, "user": comment.user.login})
|
||||
page += 1
|
||||
|
||||
opened_by = None
|
||||
if issue.user and issue.user.login:
|
||||
opened_by = issue.user.login
|
||||
|
||||
return {
|
||||
"number": issue_number,
|
||||
"title": issue.title,
|
||||
"body": issue.body,
|
||||
"comments": str(comments),
|
||||
"opened_by": str(opened_by),
|
||||
}
|
||||
|
||||
def list_pull_request_files(self, pr_number: int) -> List[Dict[str, Any]]:
|
||||
"""Fetches the full text of all files in a PR. Truncates after first 3k tokens.
|
||||
# TODO: Enhancement to summarize files with ctags if they're getting long.
|
||||
|
||||
Args:
|
||||
pr_number(int): The number of the pull request on Github
|
||||
|
||||
Returns:
|
||||
dict: A dictionary containing the issue's title,
|
||||
body, and comments as a string
|
||||
"""
|
||||
MAX_TOKENS_FOR_FILES = 3_000
|
||||
pr_files = []
|
||||
pr = self.github_repo_instance.get_pull(number=int(pr_number))
|
||||
total_tokens = 0
|
||||
page = 0
|
||||
while True: # or while (total_tokens + tiktoken()) < MAX_TOKENS_FOR_FILES:
|
||||
files_page = pr.get_files().get_page(page)
|
||||
if len(files_page) == 0:
|
||||
break
|
||||
for file in files_page:
|
||||
try:
|
||||
file_metadata_response = requests.get(file.contents_url)
|
||||
if file_metadata_response.status_code == 200:
|
||||
download_url = json.loads(file_metadata_response.text)[
|
||||
"download_url"
|
||||
]
|
||||
else:
|
||||
print(f"Failed to download file: {file.contents_url}, skipping")
|
||||
continue
|
||||
|
||||
file_content_response = requests.get(download_url)
|
||||
if file_content_response.status_code == 200:
|
||||
# Save the content as a UTF-8 string
|
||||
file_content = file_content_response.text
|
||||
else:
|
||||
print(
|
||||
"Failed downloading file content "
|
||||
f"(Error {file_content_response.status_code}). Skipping"
|
||||
)
|
||||
continue
|
||||
|
||||
file_tokens = len(
|
||||
tiktoken.get_encoding("cl100k_base").encode(
|
||||
file_content + file.filename + "file_name file_contents"
|
||||
)
|
||||
)
|
||||
if (total_tokens + file_tokens) < MAX_TOKENS_FOR_FILES:
|
||||
pr_files.append(
|
||||
{
|
||||
"filename": file.filename,
|
||||
"contents": file_content,
|
||||
"additions": file.additions,
|
||||
"deletions": file.deletions,
|
||||
}
|
||||
)
|
||||
total_tokens += file_tokens
|
||||
except Exception as e:
|
||||
print(f"Error when reading files from a PR on github. {e}")
|
||||
page += 1
|
||||
return pr_files
|
||||
|
||||
def get_pull_request(self, pr_number: int) -> Dict[str, Any]:
|
||||
"""
|
||||
Fetches a specific pull request and its first 10 comments,
|
||||
limited by max_tokens.
|
||||
|
||||
Parameters:
|
||||
pr_number(int): The number for the Github pull
|
||||
max_tokens(int): The maximum number of tokens in the response
|
||||
Returns:
|
||||
dict: A dictionary containing the pull's title, body,
|
||||
and comments as a string
|
||||
"""
|
||||
max_tokens = 2_000
|
||||
pull = self.github_repo_instance.get_pull(number=pr_number)
|
||||
total_tokens = 0
|
||||
|
||||
def get_tokens(text: str) -> int:
|
||||
return len(tiktoken.get_encoding("cl100k_base").encode(text))
|
||||
|
||||
def add_to_dict(data_dict: Dict[str, Any], key: str, value: str) -> None:
|
||||
nonlocal total_tokens # Declare total_tokens as nonlocal
|
||||
tokens = get_tokens(value)
|
||||
if total_tokens + tokens <= max_tokens:
|
||||
data_dict[key] = value
|
||||
total_tokens += tokens # Now this will modify the outer variable
|
||||
|
||||
response_dict: Dict[str, str] = {}
|
||||
add_to_dict(response_dict, "title", pull.title)
|
||||
add_to_dict(response_dict, "number", str(pr_number))
|
||||
add_to_dict(response_dict, "body", pull.body)
|
||||
|
||||
comments: List[str] = []
|
||||
page = 0
|
||||
while len(comments) <= 10:
|
||||
comments_page = pull.get_issue_comments().get_page(page)
|
||||
if len(comments_page) == 0:
|
||||
break
|
||||
for comment in comments_page:
|
||||
comment_str = str({"body": comment.body, "user": comment.user.login})
|
||||
if total_tokens + get_tokens(comment_str) > max_tokens:
|
||||
break
|
||||
comments.append(comment_str)
|
||||
total_tokens += get_tokens(comment_str)
|
||||
page += 1
|
||||
add_to_dict(response_dict, "comments", str(comments))
|
||||
|
||||
commits: List[str] = []
|
||||
page = 0
|
||||
while len(commits) <= 10:
|
||||
commits_page = pull.get_commits().get_page(page)
|
||||
if len(commits_page) == 0:
|
||||
break
|
||||
for commit in commits_page:
|
||||
commit_str = str({"message": commit.commit.message})
|
||||
if total_tokens + get_tokens(commit_str) > max_tokens:
|
||||
break
|
||||
commits.append(commit_str)
|
||||
total_tokens += get_tokens(commit_str)
|
||||
page += 1
|
||||
add_to_dict(response_dict, "commits", str(commits))
|
||||
return response_dict
|
||||
|
||||
def create_pull_request(self, pr_query: str) -> str:
|
||||
"""
|
||||
Makes a pull request from the bot's branch to the base branch
|
||||
@ -150,9 +509,9 @@ class GitHubAPIWrapper(BaseModel):
|
||||
Returns:
|
||||
str: A success or failure message
|
||||
"""
|
||||
if self.github_base_branch == self.github_branch:
|
||||
if self.github_base_branch == self.active_branch:
|
||||
return """Cannot make a pull request because
|
||||
commits are already in the master branch"""
|
||||
commits are already in the main or master branch."""
|
||||
else:
|
||||
try:
|
||||
title = pr_query.split("\n")[0]
|
||||
@ -160,7 +519,7 @@ class GitHubAPIWrapper(BaseModel):
|
||||
pr = self.github_repo_instance.create_pull(
|
||||
title=title,
|
||||
body=body,
|
||||
head=self.github_branch,
|
||||
head=self.active_branch,
|
||||
base=self.github_base_branch,
|
||||
)
|
||||
return f"Successfully created PR number {pr.number}"
|
||||
@ -198,33 +557,60 @@ class GitHubAPIWrapper(BaseModel):
|
||||
Returns:
|
||||
str: A success or failure message
|
||||
"""
|
||||
if self.active_branch == self.github_base_branch:
|
||||
return (
|
||||
"You're attempting to commit to the directly to the"
|
||||
f"{self.github_base_branch} branch, which is protected. "
|
||||
"Please create a new branch and try again."
|
||||
)
|
||||
|
||||
file_path = file_query.split("\n")[0]
|
||||
file_contents = file_query[len(file_path) + 2 :]
|
||||
|
||||
try:
|
||||
exists = self.github_repo_instance.get_contents(file_path)
|
||||
if exists is None:
|
||||
self.github_repo_instance.create_file(
|
||||
path=file_path,
|
||||
message="Create " + file_path,
|
||||
content=file_contents,
|
||||
branch=self.github_branch,
|
||||
try:
|
||||
file = self.github_repo_instance.get_contents(
|
||||
file_path, ref=self.active_branch
|
||||
)
|
||||
return "Created file " + file_path
|
||||
else:
|
||||
return f"File already exists at {file_path}. Use update_file instead"
|
||||
if file:
|
||||
return (
|
||||
f"File already exists at `{file_path}` "
|
||||
f"on branch `{self.active_branch}`. You must use "
|
||||
"`update_file` to modify it."
|
||||
)
|
||||
except Exception:
|
||||
# expected behavior, file shouldn't exist yet
|
||||
pass
|
||||
|
||||
self.github_repo_instance.create_file(
|
||||
path=file_path,
|
||||
message="Create " + file_path,
|
||||
content=file_contents,
|
||||
branch=self.active_branch,
|
||||
)
|
||||
return "Created file " + file_path
|
||||
except Exception as e:
|
||||
return "Unable to make file due to error:\n" + str(e)
|
||||
|
||||
def read_file(self, file_path: str) -> str:
|
||||
"""
|
||||
Reads a file from the github repo
|
||||
Read a file from this agent's branch, defined by self.active_branch,
|
||||
which supports PR branches.
|
||||
Parameters:
|
||||
file_path(str): the file path
|
||||
Returns:
|
||||
str: The file decoded as a string
|
||||
str: The file decoded as a string, or an error message if not found
|
||||
"""
|
||||
file = self.github_repo_instance.get_contents(file_path)
|
||||
return file.decoded_content.decode("utf-8")
|
||||
try:
|
||||
file = self.github_repo_instance.get_contents(
|
||||
file_path, ref=self.active_branch
|
||||
)
|
||||
return file.decoded_content.decode("utf-8")
|
||||
except Exception as e:
|
||||
return (
|
||||
f"File not found `{file_path}` on branch"
|
||||
f"`{self.active_branch}`. Error: {str(e)}"
|
||||
)
|
||||
|
||||
def update_file(self, file_query: str) -> str:
|
||||
"""
|
||||
@ -244,8 +630,14 @@ class GitHubAPIWrapper(BaseModel):
|
||||
Returns:
|
||||
A success or failure message
|
||||
"""
|
||||
if self.active_branch == self.github_base_branch:
|
||||
return (
|
||||
"You're attempting to commit to the directly"
|
||||
f"to the {self.github_base_branch} branch, which is protected. "
|
||||
"Please create a new branch and try again."
|
||||
)
|
||||
try:
|
||||
file_path = file_query.split("\n")[0]
|
||||
file_path: str = file_query.split("\n")[0]
|
||||
old_file_contents = (
|
||||
file_query.split("OLD <<<<")[1].split(">>>> OLD")[0].strip()
|
||||
)
|
||||
@ -267,12 +659,14 @@ class GitHubAPIWrapper(BaseModel):
|
||||
|
||||
self.github_repo_instance.update_file(
|
||||
path=file_path,
|
||||
message="Update " + file_path,
|
||||
message="Update " + str(file_path),
|
||||
content=updated_file_content,
|
||||
branch=self.github_branch,
|
||||
sha=self.github_repo_instance.get_contents(file_path).sha,
|
||||
branch=self.active_branch,
|
||||
sha=self.github_repo_instance.get_contents(
|
||||
file_path, ref=self.active_branch
|
||||
).sha,
|
||||
)
|
||||
return "Updated file " + file_path
|
||||
return "Updated file " + str(file_path)
|
||||
except Exception as e:
|
||||
return "Unable to update file due to error:\n" + str(e)
|
||||
|
||||
@ -284,23 +678,119 @@ class GitHubAPIWrapper(BaseModel):
|
||||
Returns:
|
||||
str: Success or failure message
|
||||
"""
|
||||
if self.active_branch == self.github_base_branch:
|
||||
return (
|
||||
"You're attempting to commit to the directly"
|
||||
f"to the {self.github_base_branch} branch, which is protected. "
|
||||
"Please create a new branch and try again."
|
||||
)
|
||||
try:
|
||||
file = self.github_repo_instance.get_contents(file_path)
|
||||
self.github_repo_instance.delete_file(
|
||||
path=file_path,
|
||||
message="Delete " + file_path,
|
||||
branch=self.github_branch,
|
||||
sha=file.sha,
|
||||
branch=self.active_branch,
|
||||
sha=self.github_repo_instance.get_contents(
|
||||
file_path, ref=self.active_branch
|
||||
).sha,
|
||||
)
|
||||
return "Deleted file " + file_path
|
||||
except Exception as e:
|
||||
return "Unable to delete file due to error:\n" + str(e)
|
||||
|
||||
def search_issues_and_prs(self, query: str) -> str:
|
||||
"""
|
||||
Searches issues and pull requests in the repository.
|
||||
|
||||
Parameters:
|
||||
query(str): The search query
|
||||
|
||||
Returns:
|
||||
str: A string containing the first 5 issues and pull requests
|
||||
"""
|
||||
search_result = self.github.search_issues(query, repo=self.github_repository)
|
||||
max_items = min(5, len(search_result))
|
||||
results = [f"Top {max_items} results:"]
|
||||
for issue in search_result[:max_items]:
|
||||
results.append(
|
||||
f"Title: {issue.title}, Number: {issue.number}, State: {issue.state}"
|
||||
)
|
||||
return "\n".join(results)
|
||||
|
||||
def search_code(self, query: str) -> str:
|
||||
"""
|
||||
Searches code in the repository.
|
||||
# Todo: limit total tokens returned...
|
||||
|
||||
Parameters:
|
||||
query(str): The search query
|
||||
|
||||
Returns:
|
||||
str: A string containing, at most, the top 5 search results
|
||||
"""
|
||||
search_result = self.github.search_code(
|
||||
query=query, repo=self.github_repository
|
||||
)
|
||||
if search_result.totalCount == 0:
|
||||
return "0 results found."
|
||||
max_results = min(5, search_result.totalCount)
|
||||
results = [f"Showing top {max_results} of {search_result.totalCount} results:"]
|
||||
count = 0
|
||||
for code in search_result:
|
||||
if count >= max_results:
|
||||
break
|
||||
# Get the file content using the PyGithub get_contents method
|
||||
file_content = self.github_repo_instance.get_contents(
|
||||
code.path, ref=self.active_branch
|
||||
).decoded_content.decode()
|
||||
results.append(
|
||||
f"Filepath: `{code.path}`\nFile contents: "
|
||||
f"{file_content}\n<END OF FILE>"
|
||||
)
|
||||
count += 1
|
||||
return "\n".join(results)
|
||||
|
||||
def create_review_request(self, reviewer_username: str) -> str:
|
||||
"""
|
||||
Creates a review request on *THE* open pull request
|
||||
that matches the current active_branch.
|
||||
|
||||
Parameters:
|
||||
reviewer_username(str): The username of the person who is being requested
|
||||
|
||||
Returns:
|
||||
str: A message confirming the creation of the review request
|
||||
"""
|
||||
pull_requests = self.github_repo_instance.get_pulls(
|
||||
state="open", sort="created"
|
||||
)
|
||||
# find PR against active_branch
|
||||
pr = next(
|
||||
(pr for pr in pull_requests if pr.head.ref == self.active_branch), None
|
||||
)
|
||||
if pr is None:
|
||||
return (
|
||||
"No open pull request found for the "
|
||||
f"current branch `{self.active_branch}`"
|
||||
)
|
||||
|
||||
try:
|
||||
pr.create_review_request(reviewers=[reviewer_username])
|
||||
return (
|
||||
f"Review request created for user {reviewer_username} "
|
||||
f"on PR #{pr.number}"
|
||||
)
|
||||
except Exception as e:
|
||||
return f"Failed to create a review request with error {e}"
|
||||
|
||||
def run(self, mode: str, query: str) -> str:
|
||||
if mode == "get_issues":
|
||||
return self.get_issues()
|
||||
elif mode == "get_issue":
|
||||
if mode == "get_issue":
|
||||
return json.dumps(self.get_issue(int(query)))
|
||||
elif mode == "get_pull_request":
|
||||
return json.dumps(self.get_pull_request(int(query)))
|
||||
elif mode == "list_pull_request_files":
|
||||
return json.dumps(self.list_pull_request_files(int(query)))
|
||||
elif mode == "get_issues":
|
||||
return self.get_issues()
|
||||
elif mode == "comment_on_issue":
|
||||
return self.comment_on_issue(query)
|
||||
elif mode == "create_file":
|
||||
@ -313,5 +803,25 @@ class GitHubAPIWrapper(BaseModel):
|
||||
return self.update_file(query)
|
||||
elif mode == "delete_file":
|
||||
return self.delete_file(query)
|
||||
elif mode == "list_open_pull_requests":
|
||||
return self.list_open_pull_requests()
|
||||
elif mode == "list_files_in_main_branch":
|
||||
return self.list_files_in_main_branch()
|
||||
elif mode == "list_files_in_bot_branch":
|
||||
return self.list_files_in_bot_branch()
|
||||
elif mode == "list_branches_in_repo":
|
||||
return self.list_branches_in_repo()
|
||||
elif mode == "set_active_branch":
|
||||
return self.set_active_branch(query)
|
||||
elif mode == "create_branch":
|
||||
return self.create_branch(query)
|
||||
elif mode == "get_files_from_directory":
|
||||
return self.get_files_from_directory(query)
|
||||
elif mode == "search_issues_and_prs":
|
||||
return self.search_issues_and_prs(query)
|
||||
elif mode == "search_code":
|
||||
return self.search_code(query)
|
||||
elif mode == "create_review_request":
|
||||
return self.create_review_request(query)
|
||||
else:
|
||||
raise ValueError("Invalid mode" + mode)
|
||||
|
||||
Loading…
Reference in New Issue
Block a user