fix: improve null safety in GitLab webhook handler

docs: add language configuration documentation and update changelog

.github/ISSUE_TEMPLATE/bug-report.yml

@@ -0,0 +1,38 @@
+name: "\U0001FAB2 Bug Report"
+description: Submit a bug report
+labels: ["bug"]
+body:
+
+  - type: dropdown
+    id: information-git-provider
+    attributes:
+      label: Git provider
+      description: 'The problem arises when using:'
+      options:
+        - "Github Cloud"
+        - "Github Enterprise"
+        - "Gitlab"
+        - "Bitbucket Cloud"
+        - "Bitbucket Server"
+        - "Azure"
+        - "Other"
+    validations:
+      required: true
+
+  - type: textarea
+    id: system-info
+    attributes:
+      label: System Info
+      description: Please share your system info with us.
+      placeholder: model used, deployment type (action/app/cli/...), etc...
+    validations:
+      required: true
+
+  - type: textarea
+    id: bug-details
+    attributes:
+      label: Bug details
+      description: Please describe the problem.
+      placeholder: Describe the problem
+    validations:
+      required: true

.github/ISSUE_TEMPLATE/config.yml

@@ -0,0 +1,10 @@
+blank_issues_enabled: false
+version: 0.1
+contact_links:
+  - name: Discussions
+    url: https://github.com/qodo-ai/pr-agent/discussions
+    about: GitHub Discussions
+
+  - name: Discord community
+    url: https://discord.com/channels/1057273017547378788/1126104260430528613
+    about: Join our discord community

.github/ISSUE_TEMPLATE/feature-request.yml

@@ -0,0 +1,21 @@
+name: "\U0001F4A1 Feature request"
+description: Submit a proposal/request for a new PR-Agent feature
+labels: ["feature"]
+body:
+  - type: textarea
+    id: feature-request
+    validations:
+      required: true
+    attributes:
+      label: Feature request
+      description: |
+        Description of the feature proposal.
+
+  - type: textarea
+    id: motivation
+    validations:
+      required: true
+    attributes:
+      label: Motivation
+      description: |
+        Outline the motivation for the proposal.

.github/ISSUE_TEMPLATE/miscellaneous.yml

@@ -0,0 +1,36 @@
+name: "❔ General Issue"
+description: Submit a general issue
+labels: ["general"]
+body:
+
+  - type: dropdown
+    id: information-git-provider
+    attributes:
+      label: Git provider (optional)
+      description: 'Git Provider:'
+      options:
+        - "Github Cloud"
+        - "Github Enterprise"
+        - "Gitlab"
+        - "Bitbucket Cloud"
+        - "Bitbucket Server"
+        - "Azure"
+        - "Other"
+
+  - type: textarea
+    id: system-info
+    attributes:
+      label: System Info (optional)
+      description: Please share your system info with us.
+      placeholder: model used, deployment type (action/app/cli/...), etc...
+    validations:
+      required: false
+
+  - type: textarea
+    id: issues-details
+    attributes:
+      label: Issues details
+      description: Please share the issues details.
+      placeholder: Describe the issue
+    validations:
+      required: true

.github/workflows/build-and-test.yaml

@@ -37,5 +37,3 @@ jobs:
         name: Test dev docker
         run: |
           docker run --rm codiumai/pr-agent:test pytest -v tests/unittest
-        
-          

.github/workflows/pr-agent-review.yaml

@@ -30,6 +30,3 @@ jobs:
           GITHUB_ACTION_CONFIG.AUTO_DESCRIBE: true
           GITHUB_ACTION_CONFIG.AUTO_REVIEW: true
           GITHUB_ACTION_CONFIG.AUTO_IMPROVE: true
-
-
-

.github/workflows/pre-commit.yml

@@ -0,0 +1,17 @@
+# disabled. We might run it manually if needed.
+name: pre-commit
+
+on:
+  workflow_dispatch:
+#  pull_request:
+#  push:
+#    branches: [main]
+
+jobs:
+  pre-commit:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v3
+      - uses: actions/setup-python@v5
+      # SEE https://github.com/pre-commit/action
+      - uses: pre-commit/action@v3.0.1

.gitignore

@@ -1,6 +1,7 @@
 .idea/
 .lsp/
 .vscode/
+.env
 venv/
 pr_agent/settings/.secrets.toml
 __pycache__
@@ -9,3 +10,4 @@ dist/
 build/
 .DS_Store
 docs/.cache/
+.qodo

.pre-commit-config.yaml

@@ -0,0 +1,46 @@
+# See https://pre-commit.com for more information
+# See https://pre-commit.com/hooks.html for more hooks
+
+default_language_version:
+  python: python3
+
+repos:
+  - repo: https://github.com/pre-commit/pre-commit-hooks
+    rev: v5.0.0
+    hooks:
+      - id: check-added-large-files
+      - id: check-toml
+      - id: check-yaml
+      - id: end-of-file-fixer
+      - id: trailing-whitespace
+  # - repo: https://github.com/rhysd/actionlint
+  #   rev: v1.7.3
+  #   hooks:
+  #     - id: actionlint
+  - repo: https://github.com/pycqa/isort
+    # rev must match what's in dev-requirements.txt
+    rev: 5.13.2
+    hooks:
+      - id: isort
+  # - repo: https://github.com/PyCQA/bandit
+  #   rev: 1.7.10
+  #   hooks:
+  #     - id: bandit
+  #       args: [
+  #         "-c", "pyproject.toml",
+  #       ]
+  # - repo: https://github.com/astral-sh/ruff-pre-commit
+  #   rev: v0.7.1
+  #   hooks:
+  #     - id: ruff
+  #       args:
+  #         - --fix
+  #     - id: ruff-format
+  # -   repo: https://github.com/PyCQA/autoflake
+  #     rev: v2.3.1
+  #     hooks:
+  #     -   id: autoflake
+  #         args:
+  #           - --in-place
+  #           - --remove-all-unused-imports
+  #           - --remove-unused-variables

CODE_OF_CONDUCT.md

@@ -0,0 +1,45 @@
+# Contributor Code of Conduct
+
+As contributors and maintainers of this project, and in the interest of fostering an open
+and welcoming community, we pledge to respect all people who contribute through reporting
+issues, posting feature requests, updating documentation, submitting pull requests or
+patches, and other activities.
+
+We are committed to making participation in this project a harassment-free experience for
+everyone, regardless of level of experience, gender, gender identity and expression,
+sexual orientation, disability, personal appearance, body size, race, ethnicity, age,
+religion, or nationality.
+
+Examples of unacceptable behavior by participants include:
+
+* The use of sexualized language or imagery
+* Personal attacks
+* Trolling or insulting/derogatory comments
+* Public or private harassment
+* Publishing other's private information, such as physical or electronic addresses,
+  without explicit permission
+* Other unethical or unprofessional conduct
+
+Project maintainers have the right and responsibility to remove, edit, or reject comments,
+commits, code, wiki edits, issues, and other contributions that are not aligned to this
+Code of Conduct, or to ban temporarily or permanently any contributor for other behaviors
+that they deem inappropriate, threatening, offensive, or harmful.
+
+By adopting this Code of Conduct, project maintainers commit themselves to fairly and
+consistently applying these principles to every aspect of managing this project. Project
+maintainers who do not follow or enforce the Code of Conduct may be permanently removed
+from the project team.
+
+This Code of Conduct applies both within project spaces and in public spaces when an
+individual is representing the project or its community.
+
+Instances of abusive, harassing, or otherwise unacceptable behavior may be reported by
+contacting a project maintainer at tal.r@qodo.ai . All complaints will
+be reviewed and investigated and will result in a response that is deemed necessary and
+appropriate to the circumstances. Maintainers are obligated to maintain confidentiality
+with regard to the reporter of an incident.
+
+This Code of Conduct is adapted from the
+[Contributor Covenant](https://contributor-covenant.org), version 1.3.0, available at
+[contributor-covenant.org/version/1/3/0/](https://contributor-covenant.org/version/1/3/0/)
+

CONTRIBUTING.md

@@ -0,0 +1,38 @@
+# Contributing to PR-Agent
+
+Thank you for your interest in contributing to the PR-Agent project! 
+
+## Getting Started
+
+1. Fork the repository and clone your fork
+2. Install Python 3.10 or higher
+3. Install dependencies (`requirements.txt` and `requirements-dev.txt`)
+4. Create a new branch for your contribution:
+   - For new features: `git checkout -b feature/your-feature-name`
+   - For bug fixes: `git checkout -b fix/issue-description`
+5. Make your changes
+6. Write or update tests as needed
+7. Run tests locally to ensure everything passes
+8. Commit your changes using conventional commit messages
+9. Push to your fork and submit a pull request
+
+## Development Guidelines
+
+- Keep pull requests focused on a single feature or fix
+- Follow the existing code style and formatting conventions
+- Add unit tests for any new functionality using pytest
+- Ensure test coverage for your changes
+- Update documentation as needed
+
+## Pull Request Process
+
+1. Ensure your PR includes a clear description of the changes
+2. Link any related issues
+3. Update the README.md if needed
+4. Wait for review from maintainers
+
+## Questions or Need Help?
+
+- Join our [Discord community](https://discord.com/channels/1057273017547378788/1126104260430528613) for questions and discussions
+- Check the [documentation](https://qodo-merge-docs.qodo.ai/) for detailed information
+- Report bugs or request features through [GitHub Issues](https://github.com/qodo-ai/pr-agent/issues)

Dockerfile.github_action

@@ -3,7 +3,7 @@ FROM python:3.12 as base
 WORKDIR /app
 ADD pyproject.toml .
 ADD requirements.txt .
-RUN pip install . && rm pyproject.toml requirements.txt
+RUN pip install --no-cache-dir . && rm pyproject.toml requirements.txt
 ENV PYTHONPATH=/app
 ADD docs docs
 ADD pr_agent pr_agent

README.md

@@ -4,82 +4,91 @@
 
 
 <picture>
-  <source media="(prefers-color-scheme: dark)" srcset="https://codium.ai/images/pr_agent/logo-dark.png" width="330">
+  <source media="(prefers-color-scheme: dark)" srcset="https://www.qodo.ai/wp-content/uploads/2025/02/PR-Agent-Purple-2.png">
-  <source media="(prefers-color-scheme: light)" srcset="https://codium.ai/images/pr_agent/logo-light.png" width="330">
+  <source media="(prefers-color-scheme: light)" srcset="https://www.qodo.ai/wp-content/uploads/2025/02/PR-Agent-Purple-2.png">
   <img src="https://codium.ai/images/pr_agent/logo-light.png" alt="logo" width="330">
 
 </picture>
 <br/>
-Qode Merge PR-Agent aims to help efficiently review and handle pull requests, by providing AI feedback and suggestions
+
+ [Installation Guide](https://qodo-merge-docs.qodo.ai/installation/) | 
+[Usage Guide](https://qodo-merge-docs.qodo.ai/usage-guide/) | 
+[Tools Guide](https://qodo-merge-docs.qodo.ai/tools/) | 
+[Qodo Merge](https://qodo-merge-docs.qodo.ai/overview/pr_agent_pro/) 💎
+
+PR-Agent aims to help efficiently review and handle pull requests, by providing AI feedback and suggestions
 </div>
 
-[![GitHub license](https://img.shields.io/badge/License-Apache_2.0-blue.svg)](https://github.com/Codium-ai/pr-agent/blob/main/LICENSE)
+[![Static Badge](https://img.shields.io/badge/Chrome-Extension-violet)](https://chromewebstore.google.com/detail/qodo-merge-ai-powered-cod/ephlnjeghhogofkifjloamocljapahnl)
-[![Static Badge](https://img.shields.io/badge/Chrome-Extension-violet)](https://chromewebstore.google.com/detail/pr-agent-chrome-extension/ephlnjeghhogofkifjloamocljapahnl)
+[![Static Badge](https://img.shields.io/badge/Pro-App-blue)](https://github.com/apps/qodo-merge-pro/)
-[![Static Badge](https://img.shields.io/badge/Code-Benchmark-blue)](https://pr-agent-docs.codium.ai/finetuning_benchmark/)
+[![Static Badge](https://img.shields.io/badge/OpenSource-App-red)](https://github.com/apps/qodo-merge-pro-for-open-source/)
 [![Discord](https://badgen.net/badge/icon/discord?icon=discord&label&color=purple)](https://discord.com/channels/1057273017547378788/1126104260430528613)
-[![Twitter](https://img.shields.io/twitter/follow/codiumai)](https://twitter.com/codiumai)
+<a href="https://github.com/Codium-ai/pr-agent/commits/main">
-[![Cheat Sheet](https://img.shields.io/badge/Cheat-Sheet-red)](https://www.codium.ai/images/pr_agent/cheat_sheet.pdf)
+<img alt="GitHub" src="https://img.shields.io/github/last-commit/Codium-ai/pr-agent/main?style=for-the-badge" height="20">
-    <a href="https://github.com/Codium-ai/pr-agent/commits/main">
+</a>
-    <img alt="GitHub" src="https://img.shields.io/github/last-commit/Codium-ai/pr-agent/main?style=for-the-badge" height="20">
-    </a>
 </div>
 
-### [Documentation](https://pr-agent-docs.codium.ai/)
+[//]: # (### [Documentation]&#40;https://qodo-merge-docs.qodo.ai/&#41;)
-- See the [Installation Guide](https://qodo-merge-docs.qodo.ai/installation/) for instructions on installing Qode Merge PR-Agent on different platforms.
 
-- See the [Usage Guide](https://qodo-merge-docs.qodo.ai/usage-guide/) for instructions on running Qode Merge PR-Agent tools via different interfaces, such as CLI, PR Comments, or by automatically triggering them when a new PR is opened.
+[//]: # ()
+[//]: # (- See the [Installation Guide]&#40;https://qodo-merge-docs.qodo.ai/installation/&#41; for instructions on installing PR-Agent on different platforms.)
 
-- See the [Tools Guide](https://qodo-merge-docs.qodo.ai/tools/) for a detailed description of the different tools, and the available configurations for each tool.
+[//]: # ()
+[//]: # (- See the [Usage Guide]&#40;https://qodo-merge-docs.qodo.ai/usage-guide/&#41; for instructions on running PR-Agent tools via different interfaces, such as CLI, PR Comments, or by automatically triggering them when a new PR is opened.)
+
+[//]: # ()
+[//]: # (- See the [Tools Guide]&#40;https://qodo-merge-docs.qodo.ai/tools/&#41; for a detailed description of the different tools, and the available configurations for each tool.)
 
 
 ## Table of Contents
+
 - [News and Updates](#news-and-updates)
 - [Overview](#overview)
 - [Example results](#example-results)
 - [Try it now](#try-it-now)
-- [PR-Agent Pro 💎](https://pr-agent-docs.codium.ai/overview/pr_agent_pro/)
+- [Qodo Merge](https://qodo-merge-docs.qodo.ai/overview/pr_agent_pro/)
 - [How it works](#how-it-works)
 - [Why use PR-Agent?](#why-use-pr-agent)
 
 ## News and Updates
 
-### October 27, 2024
+### Feb 27, 2025
+- Updated the default model to `o3-mini` for all tools. You can still use the `gpt-4o` as the default model by setting the `model` parameter in the configuration file.
+- Important updates and bug fixes for Azure DevOps, see [here](https://github.com/qodo-ai/pr-agent/pull/1583)
+- Added support for adjusting the [response language](https://qodo-merge-docs.qodo.ai/usage-guide/additional_configurations/#language-settings) of the PR-Agent tools.
 
-Qodo Merge PR Agent will now automatically document accepted code suggestions in a dedicated wiki page (`.pr_agent_accepted_suggestions`), enabling users to track historical changes, assess the tool's effectiveness, and learn from previously implemented recommendations in the repository.
+### Feb 6, 2025
+New design for the `/improve` tool:
 
-This dedicated wiki page will also serve as a foundation for future AI model improvements, allowing it to learn from historically implemented suggestions and generate more targeted, contextually relevant recommendations.
+<kbd><img src="https://github.com/user-attachments/assets/26506430-550e-469a-adaa-af0a09b70c6d" width="512"></kbd>
-Read more about this novel feature [here](https://qodo-merge-docs.qodo.ai/tools/improve/#suggestion-tracking).
 
-<kbd><img href="https://qodo.ai/images/pr_agent/pr_agent_accepted_suggestions1.png" src="https://qodo.ai/images/pr_agent/pr_agent_accepted_suggestions1.png" width="768"></kbd>
+### Jan 25, 2025
+
+The open-source GitHub organization was updated:
+`https://github.com/codium-ai/pr-agent` →
+`https://github.com/qodo-ai/pr-agent`
+
+The docker should be redirected automatically to the new location. 
+However, if you have any issues, please update the GitHub action docker image from
+`uses: Codium-ai/pr-agent@main`
+to
+`uses: qodo-ai/pr-agent@main`
 
 
+### Jan 2, 2025
 
-### October 21, 2024
+New tool  [/Implement](https://qodo-merge-docs.qodo.ai/tools/implement/) (💎), which converts human code review discussions and feedback into ready-to-commit code changes.
-**Disable publishing labels by default:** 
 
-The default setting for `pr_description.publish_labels` has been updated to `false`. This means that labels generated by the `/describe` tool will no longer be published, unless this configuration is explicitly set to `true`.
+<kbd><img src="https://www.qodo.ai/images/pr_agent/implement1.png?v=2" width="512"></kbd>
-
-We constantly strive to balance informative AI analysis with reducing unnecessary noise. User feedback indicated that in many cases, the original PR title alone provides sufficient information, making the generated labels (`enhancement`, `documentation`, `bug fix`, ...) redundant.
-The [`review_effort`](https://qodo-merge-docs.qodo.ai/tools/review/#configuration-options) label, generated by the `review` tool, will still be published by default, as it provides valuable information enabling reviewers to prioritize small PRs first.
-
-However, every user has different preferences. To still publish the `describe` labels, set `pr_description.publish_labels=true` in the [configuration file](https://qodo-merge-docs.qodo.ai/usage-guide/configuration_options/).
-For more tailored and relevant labeling, we recommend using the [`custom_labels 💎`](https://qodo-merge-docs.qodo.ai/tools/custom_labels/) tool, that allows generating labels specific to your project's needs.
-
-<kbd>![image](https://github.com/user-attachments/assets/8f38d222-53b1-4742-b2ec-7ea0a30c9076)</kbd>
-
-→
-
-<kbd>![image](https://github.com/user-attachments/assets/8285bd90-0dda-4c7e-9237-bbfde5e21880)</kbd>
 
 
+### Jan 1, 2025
 
-### October 14, 2024
+Update logic and [documentation](https://qodo-merge-docs.qodo.ai/usage-guide/changing_a_model/#ollama) for running local models via Ollama.
-Improved support for GitHub enterprise server with [GitHub Actions](https://qodo-merge-docs.qodo.ai/installation/github/#action-for-github-enterprise-server)
 
-### October 10, 2024
+### December 30, 2024
-New ability for the `review` tool - **ticket compliance feedback**. If the PR contains a ticket number, PR-Agent will check if the PR code actually [complies](https://github.com/Codium-ai/pr-agent/pull/1279#issuecomment-2404042130) with the ticket requirements.
 
-<kbd><img src="https://github.com/user-attachments/assets/4a2a728b-5f47-40fa-80cc-16efd296938c" width="768"></kbd>
+Following feedback from the community, we have addressed two vulnerabilities identified in the open-source PR-Agent project. The [fixes](https://github.com/qodo-ai/pr-agent/pull/1425) are now included in the newly released version (v0.26), available as of today.
 
 
 ## Overview
@@ -87,69 +96,77 @@ New ability for the `review` tool - **ticket compliance feedback**. If the PR co
 
 Supported commands per platform:
 
-|       |                                                                                                         | GitHub             | Gitlab             | Bitbucket          | Azure DevOps |
+|       |                                                                                                         | GitHub             | GitLab             | Bitbucket | Azure DevOps |
-|-------|---------------------------------------------------------------------------------------------------------|:--------------------:|:--------------------:|:--------------------:|:------------:|
+|-------|---------------------------------------------------------------------------------------------------------|:--------------------:|:--------------------:|:---------:|:------------:|
-| TOOLS | Review                                                                                                  | ✅ | ✅ | ✅ |      ✅       |
+| TOOLS | [Review](https://qodo-merge-docs.qodo.ai/tools/review/)                                                                                                  | ✅ | ✅ |     ✅     |      ✅       |
-|       | ⮑ Incremental                                                                                           | ✅ |                    |                    |              |
+|       | [Describe](https://qodo-merge-docs.qodo.ai/tools/describe/)                                                                                                | ✅ | ✅ |     ✅     |      ✅       |
-|       | Describe                                                                                                | ✅ | ✅ | ✅ |      ✅       |
+|       | [Improve](https://qodo-merge-docs.qodo.ai/tools/improve/)                                                                                                 | ✅ | ✅ |     ✅     |      ✅       |
-|       | ⮑ [Inline File Summary](https://pr-agent-docs.codium.ai/tools/describe#inline-file-summary) 💎          | ✅ |                    |                    |              |
+|       | [Ask](https://qodo-merge-docs.qodo.ai/tools/ask/)                                                                                                     | ✅ | ✅ |     ✅     |      ✅       |
-|       | Improve                                                                                                 | ✅ | ✅ | ✅ |      ✅       |
+|       | ⮑ [Ask on code lines](https://qodo-merge-docs.qodo.ai/tools/ask/#ask-lines)                              | ✅ | ✅ |           |              |
-|       | ⮑ Extended                                                                                              | ✅ | ✅ | ✅ |      ✅       |
+|       | [Update CHANGELOG](https://qodo-merge-docs.qodo.ai/tools/update_changelog/)                                                                                     | ✅ | ✅ |     ✅     |      ✅       |
-|       | Ask                                                                                                     | ✅ | ✅ | ✅ |      ✅       |
+|       | [Ticket Context](https://qodo-merge-docs.qodo.ai/core-abilities/fetching_ticket_context/) 💎  | ✅ | ✅ |     ✅     |   |
-|       | ⮑ [Ask on code lines](https://pr-agent-docs.codium.ai/tools/ask#ask-lines)                              | ✅ | ✅ |                    |              |
+|       | [Utilizing Best Practices](https://qodo-merge-docs.qodo.ai/tools/improve/#best-practices) 💎  | ✅ | ✅ |     ✅     |   |
-|       | [Custom Prompt](https://pr-agent-docs.codium.ai/tools/custom_prompt/) 💎                                | ✅ | ✅ | ✅ |              |
+|       | [PR Chat](https://qodo-merge-docs.qodo.ai/chrome-extension/features/#pr-chat) 💎  | ✅ |  |           |   |
-|       | [Test](https://pr-agent-docs.codium.ai/tools/test/) 💎                                                  | ✅ | ✅ |                    |              |
+|       | [Suggestion Tracking](https://qodo-merge-docs.qodo.ai/tools/improve/#suggestion-tracking) 💎  | ✅ | ✅ |           |   |
-|       | Reflect and Review                                                                                      | ✅ | ✅ | ✅ |      ✅       |
+|       | [CI Feedback](https://qodo-merge-docs.qodo.ai/tools/ci_feedback/) 💎                                    | ✅ |                    |           |              |
-|       | Update CHANGELOG.md                                                                                     | ✅ | ✅ | ✅ |      ✅       |
+|       | [PR Documentation](https://qodo-merge-docs.qodo.ai/tools/documentation/) 💎                         | ✅ | ✅ |           |              |
-|       | Find Similar Issue                                                                                      | ✅ |                    |                    |              |
+|       | [Custom Labels](https://qodo-merge-docs.qodo.ai/tools/custom_labels/) 💎                                | ✅ | ✅ |           |              |
-|       | [Add PR Documentation](https://pr-agent-docs.codium.ai/tools/documentation/) 💎                         | ✅ | ✅ |                   |              |
+|       | [Analyze](https://qodo-merge-docs.qodo.ai/tools/analyze/) 💎                                            | ✅ | ✅ |           |              |
-|       | [Custom Labels](https://pr-agent-docs.codium.ai/tools/custom_labels/) 💎                                | ✅ | ✅ |                    |              |
+|       | [Similar Code](https://qodo-merge-docs.qodo.ai/tools/similar_code/) 💎                                  | ✅ |                    |           |              |
-|       | [Analyze](https://pr-agent-docs.codium.ai/tools/analyze/) 💎                                            | ✅ | ✅ |                    |              |
+|       | [Custom Prompt](https://qodo-merge-docs.qodo.ai/tools/custom_prompt/) 💎                                | ✅ | ✅ |     ✅     |              |
-|       | [CI Feedback](https://pr-agent-docs.codium.ai/tools/ci_feedback/) 💎                                    | ✅ |                    |                    |              |
+|       | [Test](https://qodo-merge-docs.qodo.ai/tools/test/) 💎                                                  | ✅ | ✅ |           |              |
-|       | [Similar Code](https://pr-agent-docs.codium.ai/tools/similar_code/) 💎                                  | ✅ |                    |                    |              |
+|       | [Implement](https://qodo-merge-docs.qodo.ai/tools/implement/) 💎                                        | ✅ | ✅ |     ✅     |              |
+|       | [Auto-Approve](https://qodo-merge-docs.qodo.ai/tools/improve/?h=auto#auto-approval) 💎                  |   ✅    |   ✅    |   ✅        |            |
 |       |                                                                                                         |                    |                    |           |              |
-| USAGE | CLI                                                                                                     | ✅ | ✅ | ✅ |      ✅       |
+| USAGE | [CLI](https://qodo-merge-docs.qodo.ai/usage-guide/automations_and_usage/#local-repo-cli)                                                                                                     | ✅ | ✅ |     ✅     |      ✅       |
-|       | App / webhook                                                                                           | ✅ | ✅ | ✅ |      ✅       |
+|       | [App / webhook](https://qodo-merge-docs.qodo.ai/usage-guide/automations_and_usage/#github-app)                                                                                           | ✅ | ✅ |     ✅     |      ✅       |
-|       | Tagging bot                                                                                             | ✅ |                    |                    |              |
+|       | [Tagging bot](https://github.com/Codium-ai/pr-agent#try-it-now)                                                                                             | ✅ |                    |           |              |
-|       | Actions                                                                                                 | ✅ |✅| ✅ |✅|
+|       | [Actions](https://qodo-merge-docs.qodo.ai/installation/github/#run-as-a-github-action)                                                                                                 | ✅ |✅|     ✅     |✅|
 |       |                                                                                                         |                    |                    |           |              |
-| CORE  | PR compression                                                                                          | ✅ | ✅ | ✅ |      ✅       |
+| CORE  | [PR compression](https://qodo-merge-docs.qodo.ai/core-abilities/compression_strategy/)                                                                  | ✅ | ✅ |     ✅     |      ✅       |
-|       | Repo language prioritization                                                                            | ✅ | ✅ | ✅ |      ✅       |
 |       | Adaptive and token-aware file patch fitting                                                             | ✅ | ✅ |     ✅     |      ✅       |
-|       | Multiple models support                                                                                 | ✅ | ✅ | ✅ |      ✅       |
+|       | [Multiple models support](https://qodo-merge-docs.qodo.ai/usage-guide/changing_a_model/)                                                                                 | ✅ | ✅ |     ✅     |      ✅       |
-|       | [Static code analysis](https://pr-agent-docs.codium.ai/core-abilities/#static-code-analysis) 💎         | ✅ | ✅ | ✅ |              |
+|       | [Local and global metadata](https://qodo-merge-docs.qodo.ai/core-abilities/metadata/)          | ✅ | ✅ |     ✅     | ✅             |
-|       | [Global and wiki configurations](https://pr-agent-docs.codium.ai/usage-guide/configuration_options/) 💎 | ✅ | ✅ | ✅ |              |
+|       | [Dynamic context](https://qodo-merge-docs.qodo.ai/core-abilities/dynamic_context/)          | ✅ | ✅ |     ✅     | ✅             |
-|       | [PR interactive actions](https://www.codium.ai/images/pr_agent/pr-actions.mp4) 💎                       | ✅ |        ✅           |                    |              |
+|       | [Self reflection](https://qodo-merge-docs.qodo.ai/core-abilities/self_reflection/)          | ✅ | ✅ |     ✅     | ✅             |
-- 💎 means this feature is available only in [PR-Agent Pro](https://www.codium.ai/pricing/)
+|       | [Static code analysis](https://qodo-merge-docs.qodo.ai/core-abilities/static_code_analysis/) 💎         | ✅ | ✅ |           |              |
+|       | [Global and wiki configurations](https://qodo-merge-docs.qodo.ai/usage-guide/configuration_options/) 💎 | ✅ | ✅ |     ✅     |              |
+|       | [PR interactive actions](https://www.qodo.ai/images/pr_agent/pr-actions.mp4) 💎                       | ✅ |        ✅           |           |              |
+|       | [Impact Evaluation](https://qodo-merge-docs.qodo.ai/core-abilities/impact_evaluation/) 💎  | ✅ | ✅ |           |   |
+- 💎 means this feature is available only in [Qodo-Merge](https://www.qodo.ai/pricing/)
 
 [//]: # (- Support for additional git providers is described in [here]&#40;./docs/Full_environments.md&#41;)
 ___
 
-‣ **Auto Description ([`/describe`](https://pr-agent-docs.codium.ai/tools/describe/))**: Automatically generating PR description - title, type, summary, code walkthrough and labels.
+‣ **Auto Description ([`/describe`](https://qodo-merge-docs.qodo.ai/tools/describe/))**: Automatically generating PR description - title, type, summary, code walkthrough and labels.
 \
-‣ **Auto Review ([`/review`](https://pr-agent-docs.codium.ai/tools/review/))**: Adjustable feedback about the PR, possible issues, security concerns, review effort and more.
+‣ **Auto Review ([`/review`](https://qodo-merge-docs.qodo.ai/tools/review/))**: Adjustable feedback about the PR, possible issues, security concerns, review effort and more.
 \
-‣ **Code Suggestions ([`/improve`](https://pr-agent-docs.codium.ai/tools/improve/))**: Code suggestions for improving the PR.
+‣ **Code Suggestions ([`/improve`](https://qodo-merge-docs.qodo.ai/tools/improve/))**: Code suggestions for improving the PR.
 \
-‣ **Question Answering ([`/ask ...`](https://pr-agent-docs.codium.ai/tools/ask/))**: Answering free-text questions about the PR.
+‣ **Question Answering ([`/ask ...`](https://qodo-merge-docs.qodo.ai/tools/ask/))**: Answering free-text questions about the PR.
 \
-‣ **Update Changelog ([`/update_changelog`](https://pr-agent-docs.codium.ai/tools/update_changelog/))**: Automatically updating the CHANGELOG.md file with the PR changes.
+‣ **Update Changelog ([`/update_changelog`](https://qodo-merge-docs.qodo.ai/tools/update_changelog/))**: Automatically updating the CHANGELOG.md file with the PR changes.
 \
-‣ **Find Similar Issue ([`/similar_issue`](https://pr-agent-docs.codium.ai/tools/similar_issues/))**: Automatically retrieves and presents similar issues.
+‣ **Find Similar Issue ([`/similar_issue`](https://qodo-merge-docs.qodo.ai/tools/similar_issues/))**: Automatically retrieves and presents similar issues.
 \
-‣ **Add Documentation 💎  ([`/add_docs`](https://pr-agent-docs.codium.ai/tools/documentation/))**: Generates documentation to methods/functions/classes that changed in the PR.
+‣ **Add Documentation 💎  ([`/add_docs`](https://qodo-merge-docs.qodo.ai/tools/documentation/))**: Generates documentation to methods/functions/classes that changed in the PR.
 \
-‣ **Generate Custom Labels 💎 ([`/generate_labels`](https://pr-agent-docs.codium.ai/tools/custom_labels/))**: Generates custom labels for the PR, based on specific guidelines defined by the user.
+‣ **Generate Custom Labels 💎 ([`/generate_labels`](https://qodo-merge-docs.qodo.ai/tools/custom_labels/))**: Generates custom labels for the PR, based on specific guidelines defined by the user.
 \
-‣ **Analyze 💎 ([`/analyze`](https://pr-agent-docs.codium.ai/tools/analyze/))**: Identify code components that changed in the PR, and enables to interactively generate tests, docs, and code suggestions for each component.
+‣ **Analyze 💎 ([`/analyze`](https://qodo-merge-docs.qodo.ai/tools/analyze/))**: Identify code components that changed in the PR, and enables to interactively generate tests, docs, and code suggestions for each component.
 \
-‣ **Custom Prompt 💎 ([`/custom_prompt`](https://pr-agent-docs.codium.ai/tools/custom_prompt/))**: Automatically generates custom suggestions for improving the PR code, based on specific guidelines defined by the user.
+‣ **Test 💎 ([`/test`](https://qodo-merge-docs.qodo.ai/tools/test/))**: Generate tests for a selected component, based on the PR code changes.
 \
-‣ **Generate Tests 💎 ([`/test component_name`](https://pr-agent-docs.codium.ai/tools/test/))**: Generates unit tests for a selected component, based on the PR code changes.
+‣ **Custom Prompt 💎 ([`/custom_prompt`](https://qodo-merge-docs.qodo.ai/tools/custom_prompt/))**: Automatically generates custom suggestions for improving the PR code, based on specific guidelines defined by the user.
 \
-‣ **CI Feedback 💎 ([`/checks ci_job`](https://pr-agent-docs.codium.ai/tools/ci_feedback/))**: Automatically generates feedback and analysis for a failed CI job.
+‣ **Generate Tests 💎 ([`/test component_name`](https://qodo-merge-docs.qodo.ai/tools/test/))**: Generates unit tests for a selected component, based on the PR code changes.
 \
-‣ **Similar Code 💎 ([`/find_similar_component`](https://pr-agent-docs.codium.ai/tools/similar_code/))**: Retrieves the most similar code components from inside the organization's codebase, or from open-source code.
+‣ **CI Feedback 💎 ([`/checks ci_job`](https://qodo-merge-docs.qodo.ai/tools/ci_feedback/))**: Automatically generates feedback and analysis for a failed CI job.
+\
+‣ **Similar Code 💎 ([`/find_similar_component`](https://qodo-merge-docs.qodo.ai/tools/similar_code/))**: Retrieves the most similar code components from inside the organization's codebase, or from open-source code.
+\
+‣ **Implement 💎 ([`/implement`](https://qodo-merge-docs.qodo.ai/tools/implement/))**: Generates implementation code from review suggestions.
 ___
 
 ## Example results
@@ -180,50 +197,8 @@ ___
 </kbd>
 </p>
 </div>
-<hr>
 
-<h4><a href="https://github.com/Codium-ai/pr-agent/pull/530">/generate_labels</a></h4>
-<div align="center">
-<p float="center">
-<kbd><img src="https://www.codium.ai/images/pr_agent/geneare_custom_labels_main_short.png" width="300"></kbd>
-</p>
-</div>
 
-[//]: # (<h4><a href="https://github.com/Codium-ai/pr-agent/pull/78#issuecomment-1639739496">/reflect_and_review:</a></h4>)
-
-[//]: # (<div align="center">)
-
-[//]: # (<p float="center">)
-
-[//]: # (<img src="https://www.codium.ai/images/reflect_and_review.gif" width="800">)
-
-[//]: # (</p>)
-
-[//]: # (</div>)
-
-[//]: # (<h4><a href="https://github.com/Codium-ai/pr-agent/pull/229#issuecomment-1695020538">/ask:</a></h4>)
-
-[//]: # (<div align="center">)
-
-[//]: # (<p float="center">)
-
-[//]: # (<img src="https://www.codium.ai/images/ask-2.gif" width="800">)
-
-[//]: # (</p>)
-
-[//]: # (</div>)
-
-[//]: # (<h4><a href="https://github.com/Codium-ai/pr-agent/pull/229#issuecomment-1695024952">/improve:</a></h4>)
-
-[//]: # (<div align="center">)
-
-[//]: # (<p float="center">)
-
-[//]: # (<img src="https://www.codium.ai/images/improve-2.gif" width="800">)
-
-[//]: # (</p>)
-
-[//]: # (</div>)
 <div align="left">
 
 
@@ -244,22 +219,16 @@ Note that this is a promotional bot, suitable only for initial experimentation.
 It does not have 'edit' access to your repo, for example, so it cannot update the PR description or add labels (`@CodiumAI-Agent /describe` will publish PR description as a comment). In addition, the bot cannot be used on private repositories, as it does not have access to the files there.
 
 
-![Review generation process](https://www.codium.ai/images/demo-2.gif)
-
-
-To set up your own PR-Agent, see the [Installation](https://pr-agent-docs.codium.ai/installation/) section below.
-Note that when you set your own PR-Agent or use CodiumAI hosted PR-Agent, there is no need to mention `@CodiumAI-Agent ...`. Instead, directly start with the command, e.g., `/ask ...`.
-
 ---
 
 
-## PR-Agent Pro 💎
+## Qodo Merge 💎
-[PR-Agent Pro](https://www.codium.ai/pricing/) is a hosted version of PR-Agent, provided by CodiumAI. It is available for a monthly fee, and provides the following benefits:
+[Qodo Merge](https://www.qodo.ai/pricing/) is a hosted version of PR-Agent, provided by Qodo. It is available for a monthly fee, and provides the following benefits:
-1. **Fully managed** - We take care of everything for you - hosting, models, regular updates, and more. Installation is as simple as signing up and adding the PR-Agent app to your GitHub\GitLab\BitBucket repo.
+1. **Fully managed** - We take care of everything for you - hosting, models, regular updates, and more. Installation is as simple as signing up and adding the Qodo Merge app to your GitHub\GitLab\BitBucket repo.
-2. **Improved privacy** - No data will be stored or used to train models. PR-Agent Pro will employ zero data retention, and will use an OpenAI account with zero data retention.
+2. **Improved privacy** - No data will be stored or used to train models. Qodo Merge will employ zero data retention, and will use an OpenAI account with zero data retention.
-3. **Improved support** - PR-Agent Pro users will receive priority support, and will be able to request new features and capabilities.
+3. **Improved support** - Qodo Merge users will receive priority support, and will be able to request new features and capabilities.
-4. **Extra features** -In addition to the benefits listed above, PR-Agent Pro will emphasize more customization, and the usage of static code analysis, in addition to LLM logic, to improve results. 
+4. **Extra features** -In addition to the benefits listed above, Qodo Merge will emphasize more customization, and the usage of static code analysis, in addition to LLM logic, to improve results.
-See [here](https://qodo-merge-docs.qodo.ai/overview/pr_agent_pro/) for a list of features available in PR-Agent Pro.
+See [here](https://qodo-merge-docs.qodo.ai/overview/pr_agent_pro/) for a list of features available in Qodo Merge.
 
 
 
@@ -267,9 +236,9 @@ See [here](https://qodo-merge-docs.qodo.ai/overview/pr_agent_pro/) for a list of
 
 The following diagram illustrates PR-Agent tools and their flow:
 
-![PR-Agent Tools](https://codium.ai/images/pr_agent/diagram-v0.9.png)
+![PR-Agent Tools](https://www.qodo.ai/images/pr_agent/diagram-v0.9.png)
 
-Check out the [PR Compression strategy](https://pr-agent-docs.codium.ai/core-abilities/#pr-compression-strategy) page for more details on how we convert a code diff to a manageable LLM prompt
+Check out the [PR Compression strategy](https://qodo-merge-docs.qodo.ai/core-abilities/#pr-compression-strategy) page for more details on how we convert a code diff to a manageable LLM prompt
 
 ## Why use PR-Agent?
 
@@ -278,7 +247,7 @@ A reasonable question that can be asked is: `"Why use PR-Agent? What makes it st
 Here are some advantages of PR-Agent:
 
 - We emphasize **real-life practical usage**. Each tool (review, improve, ask, ...) has a single GPT-4 call, no more. We feel that this is critical for realistic team usage - obtaining an answer quickly (~30 seconds) and affordably.
-- Our [PR Compression strategy](https://pr-agent-docs.codium.ai/core-abilities/#pr-compression-strategy)  is a core ability that enables to effectively tackle both short and long PRs.
+- Our [PR Compression strategy](https://qodo-merge-docs.qodo.ai/core-abilities/#pr-compression-strategy)  is a core ability that enables to effectively tackle both short and long PRs.
 - Our JSON prompting strategy enables to have **modular, customizable tools**. For example, the '/review' tool categories can be controlled via the [configuration](pr_agent/settings/configuration.toml) file. Adding additional categories is easy and accessible.
 - We support **multiple git providers** (GitHub, Gitlab, Bitbucket), **multiple ways** to use the tool (CLI, GitHub Action, GitHub App, Docker, ...), and **multiple models** (GPT-4, GPT-3.5, Anthropic, Cohere, Llama2).
 
@@ -290,24 +259,22 @@ Here are some advantages of PR-Agent:
 - If you host PR-Agent with your OpenAI API key, it is between you and OpenAI. You can read their API data privacy policy here:
 https://openai.com/enterprise-privacy
 
-### CodiumAI-hosted PR-Agent Pro 💎
+### Qodo-hosted Qodo Merge 💎
 
-- When using PR-Agent Pro 💎, hosted by CodiumAI, we will not store any of your data, nor will we use it for training. You will also benefit from an OpenAI account with zero data retention.
+- When using Qodo Merge 💎, hosted by Qodo, we will not store any of your data, nor will we use it for training. You will also benefit from an OpenAI account with zero data retention.
 
-- For certain clients, CodiumAI-hosted PR-Agent Pro will use CodiumAI’s proprietary models — if this is the case, you will be notified.
+- For certain clients, Qodo-hosted Qodo Merge will use Qodo’s proprietary models — if this is the case, you will be notified.
 
-- No passive collection of Code and Pull Requests’ data — PR-Agent will be active only when you invoke it, and it will then extract and analyze only data relevant to the executed command and queried pull request.
+- No passive collection of Code and Pull Requests’ data — Qodo Merge will be active only when you invoke it, and it will then extract and analyze only data relevant to the executed command and queried pull request.
 
-### PR-Agent Chrome extension
+### Qodo Merge Chrome extension
 
-- The [PR-Agent Chrome extension](https://chromewebstore.google.com/detail/pr-agent-chrome-extension/ephlnjeghhogofkifjloamocljapahnl) serves solely to modify the visual appearance of a GitHub PR screen. It does not transmit any user's repo or pull request code. Code is only sent for processing when a user submits a GitHub comment that activates a PR-Agent tool, in accordance with the standard privacy policy of PR-Agent.
+- The [Qodo Merge Chrome extension](https://chromewebstore.google.com/detail/qodo-merge-ai-powered-cod/ephlnjeghhogofkifjloamocljapahnl) serves solely to modify the visual appearance of a GitHub PR screen. It does not transmit any user's repo or pull request code. Code is only sent for processing when a user submits a GitHub comment that activates a PR-Agent tool, in accordance with the standard privacy policy of Qodo-Merge.
 
 ## Links
 
-[![Join our Discord community](https://raw.githubusercontent.com/Codium-ai/codiumai-vscode-release/main/media/docs/Joincommunity.png)](https://discord.gg/kG35uSHDBc)
-
 - Discord community: https://discord.gg/kG35uSHDBc
-- CodiumAI site: https://codium.ai
+- Qodo site: https://www.qodo.ai/
-- Blog: https://www.codium.ai/blog/
+- Blog: https://www.qodo.ai/blog/
-- Troubleshooting: https://www.codium.ai/blog/technical-faq-and-troubleshooting/
+- Troubleshooting: https://www.qodo.ai/blog/technical-faq-and-troubleshooting/
-- Support: support@codium.ai
+- Support: support@qodo.ai

SECURITY.md

@@ -0,0 +1,62 @@
+# Security Policy
+
+PR-Agent is an open-source tool to help efficiently review and handle pull requests. Qodo Merge is a paid version of PR-Agent, designed for companies and teams that require additional features and capabilities. 
+
+This document describes the security policy of PR-Agent. For Qodo Merge's security policy, see [here](https://qodo-merge-docs.qodo.ai/overview/data_privacy/#qodo-merge).
+
+## PR-Agent Self-Hosted Solutions
+
+When using PR-Agent with your OpenAI (or other LLM provider) API key, the security relationship is directly between you and the provider. We do not send your code to Qodo servers.
+
+Types of [self-hosted solutions](https://qodo-merge-docs.qodo.ai/installation):
+- Locally
+- GitHub integration
+- GitLab integration
+- BitBucket integration
+- Azure DevOps integration
+
+
+## PR-Agent Supported Versions
+
+This section outlines which versions of PR-Agent are currently supported with security updates.
+
+### Docker Deployment Options
+
+#### Latest Version
+
+For the most recent updates, use our latest Docker image which is automatically built nightly:
+```yaml
+uses: qodo-ai/pr-agent@main
+```
+
+#### Specific Release Version
+
+For a fixed version, you can pin your action to a specific release version. Browse available releases at:
+[PR-Agent Releases](https://github.com/qodo-ai/pr-agent/releases)
+
+For example, to github action:
+
+```yaml
+steps:
+  - name: PR Agent action step
+    id: pragent
+    uses: docker://codiumai/pr-agent:0.26-github_action
+```
+
+#### Enhanced Security with Docker Digest
+
+For maximum security, you can specify the Docker image using its digest:
+```yaml
+steps:
+  - name: PR Agent action step
+    id: pragent
+    uses: docker://codiumai/pr-agent@sha256:14165e525678ace7d9b51cda8652c2d74abb4e1d76b57c4a6ccaeba84663cc64
+```
+
+## Reporting a Vulnerability
+
+We take the security of PR-Agent seriously. If you discover a security vulnerability, please report it immediately to:
+
+Email: tal.r@qodo.ai
+
+Please include a description of the vulnerability, steps to reproduce, and the affected PR-Agent version.

docker/Dockerfile

@@ -4,7 +4,7 @@ WORKDIR /app
 ADD pyproject.toml .
 ADD requirements.txt .
 ADD docs docs
-RUN pip install . && rm pyproject.toml requirements.txt
+RUN pip install --no-cache-dir . && rm pyproject.toml requirements.txt
 ENV PYTHONPATH=/app
 
 FROM base AS github_app
@@ -33,7 +33,7 @@ CMD ["python", "pr_agent/servers/azuredevops_server_webhook.py"]
 
 FROM base AS test
 ADD requirements-dev.txt .
-RUN pip install -r requirements-dev.txt && rm requirements-dev.txt
+RUN pip install --no-cache-dir -r requirements-dev.txt && rm requirements-dev.txt
 ADD pr_agent pr_agent
 ADD tests tests
 

docker/Dockerfile.lambda

@@ -5,8 +5,8 @@ RUN yum update -y && \
     yum clean all
 
 ADD pyproject.toml requirements.txt .
-RUN pip install . && rm pyproject.toml
+RUN pip install --no-cache-dir . && rm pyproject.toml
-RUN pip install mangum==0.17.0
+RUN pip install --no-cache-dir mangum==0.17.0
 COPY pr_agent/ ${LAMBDA_TASK_ROOT}/pr_agent/
 
 CMD ["pr_agent.servers.serverless.serverless"]

docs/docs/ai_search/index.md

@@ -0,0 +1,315 @@
+<div class="search-section">
+    <h1>AI Docs Search</h1>
+    <p class="search-description">
+        Search through our documentation using AI-powered natural language queries.
+    </p>
+    <div class="search-container">
+        <input 
+            type="text" 
+            id="searchInput" 
+            class="search-input" 
+            placeholder="Enter your search term..."
+        >
+        <button id="searchButton" class="search-button">Search</button>
+    </div>
+    <div id="spinner" class="spinner-container" style="display: none;">
+        <div class="spinner"></div>
+    </div>
+    <div id="results" class="results-container"></div>
+</div>
+
+<style>
+Untitled
+.search-section {
+    max-width: 800px;
+    margin: 0 auto;
+    padding: 0 1rem 2rem;
+}
+
+h1 {
+    color: #666;
+    font-size: 2.125rem;
+    font-weight: normal;
+    margin-bottom: 1rem;
+}
+
+.search-description {
+    color: #666;
+    font-size: 1rem;
+    line-height: 1.5;
+    margin-bottom: 2rem;
+    max-width: 800px;
+}
+
+.search-container {
+    display: flex;
+    gap: 1rem;
+    max-width: 800px;
+    margin: 0;  /* Changed from auto to 0 to align left */
+}
+
+.search-input {
+    flex: 1;
+    padding: 0 0.875rem;
+    border: 1px solid #ddd;
+    border-radius: 4px;
+    font-size: 0.9375rem;
+    outline: none;
+    height: 40px;  /* Explicit height */
+}
+
+.search-input:focus {
+    border-color: #6c63ff;
+}
+
+.search-button {
+    padding: 0 1.25rem;
+    background-color: #2196F3;
+    color: white;
+    border: none;
+    border-radius: 4px;
+    cursor: pointer;
+    font-size: 0.875rem;
+    transition: background-color 0.2s;
+    height: 40px;  /* Match the height of search input */
+    display: flex;
+    align-items: center;
+    justify-content: center;
+}
+
+.search-button:hover {
+    background-color: #1976D2;
+}
+
+.spinner-container {
+    display: flex;
+    justify-content: center;
+    margin-top: 2rem;
+}
+
+.spinner {
+    width: 40px;
+    height: 40px;
+    border: 4px solid #f3f3f3;
+    border-top: 4px solid #2196F3;
+    border-radius: 50%;
+    animation: spin 1s linear infinite;
+}
+
+@keyframes spin {
+    0% { transform: rotate(0deg); }
+    100% { transform: rotate(360deg); }
+}
+
+.results-container {
+    margin-top: 2rem;
+    max-width: 800px;
+}
+
+.result-item {
+    padding: 1rem;
+    border: 1px solid #ddd;
+    border-radius: 4px;
+    margin-bottom: 1rem;
+}
+
+.result-title {
+    font-size: 1.2rem;
+    color: #2196F3;
+    margin-bottom: 0.5rem;
+}
+
+.result-description {
+    color: #666;
+}
+
+.error-message {
+    color: #dc3545;
+    padding: 1rem;
+    border: 1px solid #dc3545;
+    border-radius: 4px;
+    margin-top: 1rem;
+}
+
+.markdown-content {
+    line-height: 1.6;
+    color: var(--md-typeset-color);
+    background: var(--md-default-bg-color);
+    border: 1px solid var(--md-default-fg-color--lightest);
+    border-radius: 12px;
+    padding: 1.5rem;
+    box-shadow: 0 2px 4px rgba(0,0,0,0.05);
+    position: relative;
+    margin-top: 2rem;
+}
+
+.markdown-content::before {
+    content: '';
+    position: absolute;
+    top: -8px;
+    left: 24px;
+    width: 16px;
+    height: 16px;
+    background: var(--md-default-bg-color);
+    border-left: 1px solid var(--md-default-fg-color--lightest);
+    border-top: 1px solid var(--md-default-fg-color--lightest);
+    transform: rotate(45deg);
+}
+
+.markdown-content > *:first-child {
+    margin-top: 0;
+    padding-top: 0;
+}
+
+.markdown-content p {
+    margin-bottom: 1rem;
+}
+
+.markdown-content p:last-child {
+    margin-bottom: 0;
+}
+
+.markdown-content code {
+    background: var(--md-code-bg-color);
+    color: var(--md-code-fg-color);
+    padding: 0.2em 0.4em;
+    border-radius: 3px;
+    font-size: 0.9em;
+    font-family: ui-monospace, SFMono-Regular, SF Mono, Menlo, Consolas, Liberation Mono, monospace;
+}
+
+.markdown-content pre {
+    background: var(--md-code-bg-color);
+    padding: 1rem;
+    border-radius: 6px;
+    overflow-x: auto;
+    margin: 1rem 0;
+}
+
+.markdown-content pre code {
+    background: none;
+    padding: 0;
+    font-size: 0.9em;
+}
+
+[data-md-color-scheme="slate"] .markdown-content {
+    box-shadow: 0 2px 4px rgba(0,0,0,0.1);
+}
+
+</style>
+
+<script src="https://cdnjs.cloudflare.com/ajax/libs/marked/9.1.6/marked.min.js"></script>
+
+<script>
+window.addEventListener('load', function() {
+    function displayResults(responseText) {
+        const resultsContainer = document.getElementById('results');
+        const spinner = document.getElementById('spinner');
+        const searchContainer = document.querySelector('.search-container');
+        
+        // Hide spinner
+        spinner.style.display = 'none';
+        
+        // Scroll to search bar
+        searchContainer.scrollIntoView({ behavior: 'smooth', block: 'start' });
+        
+        try {
+            const results = JSON.parse(responseText);
+
+            marked.setOptions({
+                breaks: true,
+                gfm: true,
+                headerIds: false,
+                sanitize: false
+            });
+
+            const htmlContent = marked.parse(results.message);
+            
+            resultsContainer.className = 'markdown-content';
+            resultsContainer.innerHTML = htmlContent;
+
+            // Scroll after content is rendered
+            setTimeout(() => {
+                const searchContainer = document.querySelector('.search-container');
+                const offset = 55; // Offset from top in pixels
+                const elementPosition = searchContainer.getBoundingClientRect().top;
+                const offsetPosition = elementPosition + window.pageYOffset - offset;
+                
+                window.scrollTo({
+                    top: offsetPosition,
+                    behavior: 'smooth'
+                });
+            }, 100);
+        } catch (error) {
+            console.error('Error parsing results:', error);
+            resultsContainer.innerHTML = '<div class="error-message">Error processing results</div>';
+        }
+    }
+
+    async function performSearch() {
+        const searchInput = document.getElementById('searchInput');
+        const resultsContainer = document.getElementById('results');
+        const spinner = document.getElementById('spinner');
+        const searchTerm = searchInput.value.trim();
+
+        if (!searchTerm) {
+            resultsContainer.innerHTML = '<div class="error-message">Please enter a search term</div>';
+            return;
+        }
+
+        // Show spinner, clear results
+        spinner.style.display = 'flex';
+        resultsContainer.innerHTML = '';
+
+        try { 
+            const data = {
+                "query": searchTerm
+            };
+
+            const options = {
+                method: 'POST',
+                headers: {
+                    'accept': 'text/plain',
+                    'content-type': 'application/json',
+                },
+                body: JSON.stringify(data)
+            };
+
+            // const API_ENDPOINT = 'http://0.0.0.0:3000/api/v1/docs_help';
+            const API_ENDPOINT = 'https://help.merge.qodo.ai/api/v1/docs_help';
+
+            const response = await fetch(API_ENDPOINT, options);
+
+            if (!response.ok) {
+                throw new Error(`HTTP error! status: ${response.status}`);
+            }
+
+            const responseText = await response.text();
+            displayResults(responseText);
+        } catch (error) {
+            spinner.style.display = 'none';
+            resultsContainer.innerHTML = `
+                <div class="error-message">
+                    An error occurred while searching. Please try again later.
+                </div>
+            `;
+        }
+    }
+
+    // Add event listeners
+    const searchButton = document.getElementById('searchButton');
+    const searchInput = document.getElementById('searchInput');
+    
+    if (searchButton) {
+        searchButton.addEventListener('click', performSearch);
+    }
+    
+    if (searchInput) {
+        searchInput.addEventListener('keypress', function(e) {
+            if (e.key === 'Enter') {
+                performSearch();
+            }
+        });
+    }
+});
+</script>

docs/docs/chrome-extension/data_privacy.md

@@ -1,5 +1,4 @@
 We take your code's security and privacy seriously:
 
 - The Chrome extension will not send your code to any external servers.
-- For private repositories, we will first validate the user's identity and permissions. After authentication, we generate responses using the existing Qodo Merge Pro integration.
+- For private repositories, we will first validate the user's identity and permissions. After authentication, we generate responses using the existing Qodo Merge integration.
-

docs/docs/chrome-extension/features.md

@@ -8,7 +8,7 @@ To enable private chat, simply install the Qodo Merge Chrome extension. After in
 This chat session is **private**, and won't be visible to other users.
 
 All open-source repositories are supported.
-For private repositories, you will also need to install Qodo Merge Pro, After installation, make sure to open at least one new PR to fully register your organization. Once done, you can chat with both new and existing PRs across all installed repositories.
+For private repositories, you will also need to install Qodo Merge. After installation, make sure to open at least one new PR to fully register your organization. Once done, you can chat with both new and existing PRs across all installed repositories.
 
 #### Context-aware PR chat
 

docs/docs/chrome-extension/index.md

@@ -1,11 +1,11 @@
-[Qodo Merge Chrome extension](https://chromewebstore.google.com/detail/pr-agent-chrome-extension/ephlnjeghhogofkifjloamocljapahnl) is a collection of tools that integrates seamlessly with your GitHub environment, aiming to enhance your Git usage experience, and providing AI-powered capabilities to your PRs.
+[Qodo Merge Chrome extension](https://chromewebstore.google.com/detail/pr-agent-chrome-extension/ephlnjeghhogofkifjloamocljapahnl){:target="_blank"} is a collection of tools that integrates seamlessly with your GitHub environment, aiming to enhance your Git usage experience, and providing AI-powered capabilities to your PRs.
 
 With a single-click installation you will gain access to a context-aware chat on your pull requests code, a toolbar extension with multiple AI feedbacks, Qodo Merge filters, and additional abilities.
 
 The extension is powered by top code models like Claude 3.5 Sonnet and GPT4. All the extension's features are free to use on public repositories.
 
-For private repositories, you will need to install [Qodo Merge Pro](https://github.com/apps/codiumai-pr-agent-pro) in addition to the extension  (Quick GitHub app setup with a 14-day free trial. No credit card needed).
+For private repositories, you will need to install [Qodo Merge](https://github.com/apps/qodo-merge-pro){:target="_blank"} in addition to the extension  (Quick GitHub app setup with a 14-day free trial. No credit card needed).
-For a demonstration of how to install Qodo Merge Pro and use it with the Chrome extension, please refer to the tutorial video at the provided [link](https://codium.ai/images/pr_agent/private_repos.mp4).
+For a demonstration of how to install Qodo Merge and use it with the Chrome extension, please refer to the tutorial video at the provided [link](https://codium.ai/images/pr_agent/private_repos.mp4){:target="_blank"}.
 
 <img src="https://codium.ai/images/pr_agent/PR-AgentChat.gif" width="768">
 

docs/docs/core-abilities/auto_best_practices.md

@@ -0,0 +1,69 @@
+# Auto Best Practices 💎
+`Supported Git Platforms: GitHub`
+
+## Overview
+
+![Auto best practice suggestion graph](https://www.qodo.ai/images/pr_agent/auto_best_practices_graph.png){width=684}
+
+> Note - enabling a [Wiki](https://qodo-merge-docs.qodo.ai/usage-guide/enabling_a_wiki/) is required for this feature.
+
+### Finding Code Problems - Exploration Phase
+
+The `improve` tool identifies potential issues, problems and bugs in Pull Request (PR) code changes. 
+Rather than focusing on minor issues like code style or formatting, the tool intelligently analyzes code to detect meaningful problems. 
+
+The analysis intentionally takes a flexible, _exploratory_ approach to identify meaningful potential issues, allowing the tool to surface relevant code suggestions without being constrained by predefined categories.
+
+### Tracking Implemented Suggestions
+
+Qodo Merge features a novel [tracking system](https://qodo-merge-docs.qodo.ai/tools/improve/#suggestion-tracking) that automatically detects when PR authors implement AI-generated code suggestions. 
+All accepted suggestions are aggregated in a repository-specific wiki page called [`.pr_agent_accepted_suggestions`](https://github.com/qodo-ai/pr-agent/wiki/.pr_agent_accepted_suggestions)
+
+
+### Learning and Applying Auto Best Practices
+
+Monthly, Qodo Merge analyzes the collection of accepted suggestions to generate repository-specific best practices, stored in [`.pr_agent_auto_best_practices`](https://github.com/qodo-ai/pr-agent/wiki/.pr_agent_auto_best_practices) wiki file.
+These best practices reflect recurring patterns in accepted code improvements.
+
+The `improve` tool will incorporate these best practices as an additional analysis layer, checking PR code changes against known patterns of previously accepted improvements.
+This creates a two-phase analysis:
+
+1. Open exploration for general code issues
+2. Targeted checking against established best practices - exploiting the knowledge gained from past suggestions
+
+By keeping these phases decoupled, the tool remains free to discover new or unseen issues and problems, while also learning from past experiences.
+
+
+When presenting the suggestions generated by the `improve` tool, Qodo Merge will add a dedicated label for each suggestion generated from the auto best practices - 'Learned best practice':
+
+![Auto best practice suggestion](https://www.qodo.ai/images/pr_agent/auto_best_practices.png){width=684}
+
+
+## Auto Best Practices vs Custom Best Practices
+
+Teams and companies can also manually define their own [custom best practices](https://qodo-merge-docs.qodo.ai/tools/improve/#best-practices) in Qodo Merge. 
+
+When custom best practices exist, Qodo Merge will still generate an 'auto best practices' wiki file, though it won't be used by the `improve` tool. 
+However, this auto-generated file can still serve two valuable purposes:
+
+1. It can help enhance your custom best practices with additional insights derived from suggestions your team found valuable enough to implement
+2. It demonstrates effective patterns for writing AI-friendly best practices
+
+Even when using custom best practices, we recommend regularly reviewing the auto best practices file to refine your custom rules.
+
+## Relevant configurations
+
+```toml
+[auto_best_practices]
+# Disable all auto best practices usage or generation
+enable_auto_best_practices = true  
+
+# Disable usage of auto best practices file in the 'improve' tool
+utilize_auto_best_practices = true 
+
+# Extra instructions to the auto best practices generation prompt
+extra_instructions = ""            
+
+# Max number of patterns to be detected
+max_patterns = 5                   
+```

docs/docs/core-abilities/fetching_ticket_context.md

@@ -0,0 +1,170 @@
+# Fetching Ticket Context for PRs
+`Supported Git Platforms: GitHub, GitLab, Bitbucket`
+
+## Overview
+Qodo Merge PR Agent streamlines code review workflows by seamlessly connecting with multiple ticket management systems.
+This integration enriches the review process by automatically surfacing relevant ticket information and context alongside code changes.
+
+## Ticket systems supported
+- GitHub
+- Jira (💎)
+
+Ticket data fetched:
+
+1. Ticket Title
+2. Ticket Description
+3. Custom Fields (Acceptance criteria)
+4. Subtasks (linked tasks)
+5. Labels
+6. Attached Images/Screenshots
+
+## Affected Tools
+
+Ticket Recognition Requirements:
+
+- The PR description should contain a link to the ticket or if the branch name starts with the ticket id / number.
+- For Jira tickets, you should follow the instructions in [Jira Integration](https://qodo-merge-docs.qodo.ai/core-abilities/fetching_ticket_context/#jira-integration) in order to authenticate with Jira.
+
+### Describe tool
+Qodo Merge PR Agent will recognize the ticket and use the ticket content (title, description, labels) to provide additional context for the code changes.
+By understanding the reasoning and intent behind modifications, the LLM can offer more insightful and relevant code analysis.
+
+### Review tool
+Similarly to the `describe` tool, the `review` tool will use the ticket content to provide additional context for the code changes.
+
+In addition, this feature will evaluate how well a Pull Request (PR) adheres to its original purpose/intent as defined by the associated ticket or issue mentioned in the PR description.
+Each ticket will be assigned a label (Compliance/Alignment level), Indicates the degree to which the PR fulfills its original purpose, Options: Fully compliant, Partially compliant or Not compliant.
+
+
+![Ticket Compliance](https://www.qodo.ai/images/pr_agent/ticket_compliance_review.png){width=768}
+
+By default, the tool will automatically validate if the PR complies with the referenced ticket.
+If you want to disable this feedback, add the following line to your configuration file:
+
+```toml
+[pr_reviewer]
+require_ticket_analysis_review=false
+```
+
+## Providers
+
+### Github Issues Integration
+
+Qodo Merge PR Agent will automatically recognize Github issues mentioned in the PR description and fetch the issue content.
+Examples of valid GitHub issue references:
+
+- `https://github.com/<ORG_NAME>/<REPO_NAME>/issues/<ISSUE_NUMBER>`
+- `#<ISSUE_NUMBER>`
+- `<ORG_NAME>/<REPO_NAME>#<ISSUE_NUMBER>`
+
+Since Qodo Merge PR Agent is integrated with GitHub, it doesn't require any additional configuration to fetch GitHub issues.
+
+### Jira Integration 💎
+
+We support both Jira Cloud and Jira Server/Data Center.
+To integrate with Jira, you can link your PR to a ticket using either of these methods:
+
+**Method 1: Description Reference:**
+
+Include a ticket reference in your PR description using either the complete URL format https://<JIRA_ORG>.atlassian.net/browse/ISSUE-123 or the shortened ticket ID ISSUE-123.
+
+**Method 2: Branch Name Detection:**
+
+Name your branch with the ticket ID as a prefix (e.g., `ISSUE-123-feature-description` or `ISSUE-123/feature-description`).
+
+!!! note "Jira Base URL"
+    For shortened ticket IDs or branch detection (method 2), you must configure the Jira base URL in your configuration file under the [jira] section:
+
+    ```toml
+    [jira]
+    jira_base_url = "https://<JIRA_ORG>.atlassian.net"
+    ```
+
+#### Jira Cloud 💎
+There are two ways to authenticate with Jira Cloud:
+
+**1) Jira App Authentication**
+
+The recommended way to authenticate with Jira Cloud is to install the Qodo Merge app in your Jira Cloud instance. This will allow Qodo Merge to access Jira data on your behalf.
+
+Installation steps:
+
+1. Click [here](https://auth.atlassian.com/authorize?audience=api.atlassian.com&client_id=8krKmA4gMD8mM8z24aRCgPCSepZNP1xf&scope=read%3Ajira-work%20offline_access&redirect_uri=https%3A%2F%2Fregister.jira.pr-agent.codium.ai&state=qodomerge&response_type=code&prompt=consent) to install the Qodo Merge app in your Jira Cloud instance, click the `accept` button.<br>
+![Jira Cloud App Installation](https://www.qodo.ai/images/pr_agent/jira_app_installation1.png){width=384}
+
+2. After installing the app, you will be redirected to the Qodo Merge registration page. and you will see a success message.<br>
+![Jira Cloud App success message](https://www.qodo.ai/images/pr_agent/jira_app_success.png){width=384}
+
+3. Now you can use the Jira integration in Qodo Merge PR Agent.
+
+**2) Email/Token Authentication**
+
+You can create an API token from your Atlassian account:
+
+1. Log in to https://id.atlassian.com/manage-profile/security/api-tokens.
+
+2. Click Create API token.
+
+3. From the dialog that appears, enter a name for your new token and click Create.
+
+4. Click Copy to clipboard.
+
+![Jira Cloud API Token](https://images.ctfassets.net/zsv3d0ugroxu/1RYvh9lqgeZjjNe5S3Hbfb/155e846a1cb38f30bf17512b6dfd2229/screenshot_NewAPIToken){width=384}
+
+5. In your [configuration file](https://qodo-merge-docs.qodo.ai/usage-guide/configuration_options/) add the following lines:
+
+```toml
+[jira]
+jira_api_token = "YOUR_API_TOKEN"
+jira_api_email = "YOUR_EMAIL"
+```
+
+
+#### Jira Data Center/Server 💎
+
+##### Local App Authentication (For Qodo Merge On-Premise Customers)
+
+##### 1. Step 1: Set up an application link in Jira Data Center/Server
+* Go to Jira Administration > Applications > Application Links > Click on `Create link`
+
+![application links](https://www.qodo.ai/images/pr_agent/jira_app_links.png){width=384}
+* Choose `External application` and set the direction to `Incoming` and then click `Continue`
+
+![external application](https://www.qodo.ai/images/pr_agent/jira_create_link.png){width=256}
+* In the following screen, enter the following details:
+    * Name: `Qodo Merge`
+    * Redirect URL: Enter your Qodo Merge URL followed  `https://{QODO_MERGE_ENDPOINT}/register_ticket_provider`
+    * Permission: Select `Read`
+    * Click `Save`
+
+![external application details](https://www.qodo.ai/images/pr_agent/jira_fill_app_link.png){width=384}
+* Copy the `Client ID` and `Client secret` and set them in your `.secrets` file:
+
+![client id and secret](https://www.qodo.ai/images/pr_agent/jira_app_credentionals.png){width=256}
+```toml
+[jira]
+jira_app_secret = "..."
+jira_client_id = "..."
+```
+
+##### 2. Step 2: Authenticate with Jira Data Center/Server
+* Open this URL in your browser: `https://{QODO_MERGE_ENDPOINT}/jira_auth`
+* Click on link
+
+![jira auth success](https://www.qodo.ai/images/pr_agent/jira_auth_page.png){width=384}
+
+* You will be redirected to Jira Data Center/Server, click `Allow`
+* You will be redirected back to Qodo Merge PR Agent and you will see a success message.
+
+
+##### Personal Access Token (PAT) Authentication
+We also support Personal Access Token (PAT) Authentication method.
+
+1. Create a [Personal Access Token (PAT)](https://confluence.atlassian.com/enterprise/using-personal-access-tokens-1026032365.html) in your Jira account
+2. In your Configuration file/Environment variables/Secrets file, add the following lines:
+
+```toml
+[jira]
+jira_base_url = "YOUR_JIRA_BASE_URL" # e.g. https://jira.example.com
+jira_api_token = "YOUR_API_TOKEN"
+```

docs/docs/core-abilities/index.md

@@ -1,6 +1,8 @@
 # Core Abilities
 Qodo Merge utilizes a variety of core abilities to provide a comprehensive and efficient code review experience. These abilities include:
 
+- [Fetching ticket context](https://qodo-merge-docs.qodo.ai/core-abilities/fetching_ticket_context/)
+- [Auto best practices](https://qodo-merge-docs.qodo.ai/core-abilities/auto_best_practices/)
 - [Local and global metadata](https://qodo-merge-docs.qodo.ai/core-abilities/metadata/)
 - [Dynamic context](https://qodo-merge-docs.qodo.ai/core-abilities/dynamic_context/)
 - [Self-reflection](https://qodo-merge-docs.qodo.ai/core-abilities/self_reflection/)
@@ -17,6 +19,7 @@ Here are some additional technical blogs from Qodo, that delve deeper into the c
 These resources provide more comprehensive insights into leveraging LLMs for software development.
 
 ### Code Generation and LLMs
+- [Effective AI code suggestions: less is more](https://www.qodo.ai/blog/effective-code-suggestions-llms-less-is-more/)
 - [State-of-the-art Code Generation with AlphaCodium – From Prompt Engineering to Flow Engineering](https://www.qodo.ai/blog/qodoflow-state-of-the-art-code-generation-for-code-contests/)
 - [RAG for a Codebase with 10k Repos](https://www.qodo.ai/blog/rag-for-large-scale-code-repos/)
 

docs/docs/core-abilities/metadata.md

@@ -1,5 +1,5 @@
 ## Local and global metadata injection with multi-stage analysis
-(1)
+1\.
 Qodo Merge initially retrieves for each PR the following data:
 
 - PR title and branch name
@@ -11,7 +11,7 @@ Qodo Merge initially retrieves for each PR the following data:
 !!! tip "Tip: Organization-level metadata"
     In addition to the inputs above, Qodo Merge can incorporate supplementary preferences provided by the user, like [`extra_instructions` and `organization best practices`](https://qodo-merge-docs.qodo.ai/tools/improve/#extra-instructions-and-best-practices). This information can be used to enhance the PR analysis.
 
-(2)
+2\.
 By default, the first command that Qodo Merge executes is [`describe`](https://qodo-merge-docs.qodo.ai/tools/describe/), which generates three types of outputs:
 
 - PR Type (e.g. bug fix, feature, refactor, etc)
@@ -32,14 +32,14 @@ For example, when generating code suggestions for different files, Qodo Merge ca
 
 @@ ... @@ def func1():
 __new hunk__
-11  unchanged code line0 in the PR
+11  unchanged code line0
-12  unchanged code line1 in the PR
+12  unchanged code line1
-13 +new code line2 added in the PR
+13 +new code line2 added
-14  unchanged code line3 in the PR
+14  unchanged code line3
 __old hunk__
  unchanged code line0
  unchanged code line1
--old code line2 removed in the PR
+-old code line2 removed
  unchanged code line3
 
 @@ ... @@ def func2():
@@ -49,8 +49,8 @@ __old hunk__
 ...
 ```
 
-(3) The entire PR files that were retrieved are also used to expand and enhance the PR context (see [Dynamic Context](https://qodo-merge-docs.qodo.ai/core-abilities/dynamic_context/)).
+3\. The entire PR files that were retrieved are also used to expand and enhance the PR context (see [Dynamic Context](https://qodo-merge-docs.qodo.ai/core-abilities/dynamic_context/)).
 
 
-(4) All the metadata described above represents several level of cumulative analysis - ranging from hunk level, to file level, to PR level, to organization level.
+4\. All the metadata described above represents several level of cumulative analysis - ranging from hunk level, to file level, to PR level, to organization level.
 This comprehensive approach enables Qodo Merge AI models to generate more precise and contextually relevant suggestions and feedback.

docs/docs/core-abilities/self_reflection.md

@@ -46,6 +46,5 @@ This results in a more refined and valuable set of suggestions for the user, sav
 ## Appendix - Relevant Configuration Options
 ```
 [pr_code_suggestions]
-self_reflect_on_suggestions	= true # Enable self-reflection on code suggestions
 suggestions_score_threshold	= 0 # Filter out suggestions with a score below this threshold (0-10)
 ```

docs/docs/core-abilities/static_code_analysis.md

@@ -61,7 +61,7 @@ Or be triggered interactively by using the `analyze` tool.
 
 ### Find Similar Code
 
-The [`similar code`](https://qodo-merge-docs.qodo.ai/tools/similar_code/) tool retrieves the most similar code components from inside the organization's codebase, or from open-source code.
+The [`similar code`](https://qodo-merge-docs.qodo.ai/tools/similar_code/) tool retrieves the most similar code components from inside the organization's codebase or from open-source code, including details about the license associated with each repository.
 
 For example:
 

docs/docs/faq/index.md

@@ -1,6 +1,6 @@
 # FAQ
 
-??? note "Question: Can Qodo Merge serve as a substitute for a human reviewer?"
+??? note "Q: Can Qodo Merge serve as a substitute for a human reviewer?"
     #### Answer:<span style="display:none;">1</span>
 
     Qodo Merge is designed to assist, not replace, human reviewers.
@@ -12,7 +12,7 @@
 
     1. Preserves user's original PR header
     2. Places user's description above the AI-generated PR description
-    3. Cannot approve PRs; approval remains reviewer's responsibility
+    3. Won't approve PRs; approval remains reviewer's responsibility
     4. The code suggestions are optional, and aim to:
         - Encourage self-review and self-reflection
         - Highlight potential bugs or oversights
@@ -22,15 +22,15 @@
 
 ___
 
-??? note "Question: I received an incorrect or irrelevant suggestion. Why?"
+??? note "Q: I received an incorrect or irrelevant suggestion. Why?"
 
     #### Answer:<span style="display:none;">2</span>
 
     - Modern AI models, like Claude 3.5 Sonnet and GPT-4, are improving rapidly but remain imperfect. Users should critically evaluate all suggestions rather than accepting them automatically.
-    - AI errors are rare, but possible. A main value from reviewing the code suggestions lies in their high probability of catching **mistakes or bugs made by the PR author**. We believe it's worth spending 30-60 seconds reviewing suggestions, even if some aren't relevant, as this practice can enhances code quality and prevent bugs in production.
+    - AI errors are rare, but possible. A main value from reviewing the code suggestions lies in their high probability of catching **mistakes or bugs made by the PR author**. We believe it's worth spending 30-60 seconds reviewing suggestions, even if some aren't relevant, as this practice can enhance code quality and prevent bugs in production.
 
 
-    - The hierarchical structure of the suggestions is designed to help the user to _quickly_ understand them, and to decide which ones are relevant and which are not:
+    - The hierarchical structure of the suggestions is designed to help the user _quickly_ understand them, and to decide which ones are relevant and which are not:
 
         - Only if the `Category` header is relevant, the user should move to the summarized suggestion description.
         - Only if the summarized suggestion description is relevant, the user should click on the collapsible, to read the full suggestion description with a code preview example.
@@ -40,14 +40,14 @@ ___
 
 ___
 
-??? note "Question: How can I get more tailored suggestions?"
+??? note "Q: How can I get more tailored suggestions?"
     #### Answer:<span style="display:none;">3</span>
 
     See [here](https://qodo-merge-docs.qodo.ai/tools/improve/#extra-instructions-and-best-practices) for more information on how to use the `extra_instructions` and `best_practices` configuration options, to guide the model to more tailored suggestions.
 
 ___
 
-??? note "Question: Will you store my code ? Are you using my code to train models?"
+??? note "Q: Will you store my code? Are you using my code to train models?"
     #### Answer:<span style="display:none;">4</span>
 
     No. Qodo Merge strict privacy policy ensures that your code is not stored or used for training purposes.
@@ -56,12 +56,35 @@ ___
 
 ___
 
-??? note "Question: Can I use my own LLM keys with Qodo Merge?"
+??? note "Q: Can I use my own LLM keys with Qodo Merge?"
     #### Answer:<span style="display:none;">5</span>
 
-    When you self-host, you use your own keys. 
+    When you self-host the [open-source](https://github.com/Codium-ai/pr-agent) version, you use your own keys.
 
-    Qodo Merge Pro with SaaS deployment is a hosted version of Qodo Merge, where Qodo manages the infrastructure and the keys.
+    Qodo Merge with SaaS deployment is a hosted version of Qodo Merge, where Qodo manages the infrastructure and the keys.
     For enterprise customers, on-prem deployment is also available. [Contact us](https://www.codium.ai/contact/#pricing) for more information.
+___
+
+??? note "Q: Can Qodo Merge review draft/offline PRs?"
+    #### Answer:<span style="display:none;">5</span>
+
+    Yes. While Qodo Merge won't automatically review draft PRs, you can still get feedback by manually requesting it through [online commenting](https://qodo-merge-docs.qodo.ai/usage-guide/automations_and_usage/#online-usage).
+
+    For active PRs, you can customize the automatic feedback settings [here](https://qodo-merge-docs.qodo.ai/usage-guide/automations_and_usage/#qodo-merge-automatic-feedback) to match your team's workflow.
+___
+
+??? note "Q: Can the 'Review effort' feedback be calibrated or customized?"
+    #### Answer:<span style="display:none;">5</span>
+
+    Yes, you can customize review effort estimates using the `extra_instructions` configuration option (see [documentation](https://qodo-merge-docs.qodo.ai/tools/review/#configuration-options)).
+    
+    Example mapping:
+
+    - Effort 1: < 30 minutes review time
+    - Effort 2: 30-60 minutes review time
+    - Effort 3: 60-90 minutes review time
+    - ...
+    
+    Note: The effort levels (1-5) are primarily meant for _comparative_ purposes, helping teams prioritize reviewing smaller PRs first. The actual review duration may vary, as the focus is on providing consistent relative effort estimates.
 
 ___

docs/docs/index.md

@@ -1,15 +1,16 @@
 # Overview
 
-Qodo Merge is an open-source tool to help efficiently review and handle pull requests.
+[PR-Agent](https://github.com/Codium-ai/pr-agent) is an open-source tool to help efficiently review and handle pull requests. 
+Qodo Merge is a hosted version of PR-Agent, designed for companies and teams that require additional features and capabilities
 
 - See the [Installation Guide](./installation/index.md) for instructions on installing and running the tool on different git platforms.
 
-- See the [Usage Guide](./usage-guide/index.md) for instructions on running the Qodo Merge commands via different interfaces, including _CLI_, _online usage_, or by _automatically triggering_ them when a new PR is opened.
+- See the [Usage Guide](./usage-guide/index.md) for instructions on running commands via different interfaces, including _CLI_, _online usage_, or by _automatically triggering_ them when a new PR is opened.
 
 - See the [Tools Guide](./tools/index.md) for a detailed description of the different tools.
 
 
-## Qodo Merge Docs Smart Search
+## Docs Smart Search
 
 To search the documentation site using natural language:
 
@@ -18,12 +19,12 @@ To search the documentation site using natural language:
    - A pull request where Qodo Merge is installed
    - A [PR Chat](https://qodo-merge-docs.qodo.ai/chrome-extension/features/#pr-chat)
 
-2) Qodo Merge will respond with an [answer](https://github.com/Codium-ai/pr-agent/pull/1241#issuecomment-2365259334) that includes relevant documentation links.
+2) The bot will respond with an [answer](https://github.com/Codium-ai/pr-agent/pull/1241#issuecomment-2365259334) that includes relevant documentation links.
 
 
 ## Qodo Merge Features
 
-Qodo Merge offers extensive pull request functionalities across various git providers.
+Qodo Merge offers extensive pull request functionalities across various git providers:
 
 |       |                                                                                                                       | GitHub | Gitlab | Bitbucket | Azure DevOps |
 |-------|-----------------------------------------------------------------------------------------------------------------------|:------:|:------:|:---------:|:------------:|
@@ -31,16 +32,19 @@ Qodo Merge offers extensive pull request functionalities across various git prov
 |       | ⮑ Incremental                                                                                                         |   ✅    |        |           |              |
 |       | Ask                                                                                                                   |   ✅    |   ✅    |     ✅     |      ✅       |
 |       | Describe                                                                                                              |   ✅    |   ✅    |     ✅     |      ✅       |
-|       | ⮑ [Inline file summary](https://qodo-merge-docs.qodo.ai/tools/describe/#inline-file-summary){:target="_blank"} 💎     |   ✅    |   ✅    |           |              |
+|       | ⮑ [Inline file summary](https://qodo-merge-docs.qodo.ai/tools/describe/#inline-file-summary){:target="_blank"} 💎     |   ✅    |   ✅    |           |      ✅       |
 |       | Improve                                                                                                               |   ✅    |   ✅    |     ✅     |      ✅       |
 |       | ⮑ Extended                                                                                                            |   ✅    |   ✅    |     ✅     |      ✅       |
-|       | [Custom Prompt](./tools/custom_prompt.md){:target="_blank"} 💎                                                        |   ✅    |   ✅    |   ✅        |              |
+|       | [Auto-Approve](https://qodo-merge-docs.qodo.ai/tools/improve/#auto-approval) 💎                                       |   ✅    |   ✅    |   ✅        |            |
-|       | Reflect and Review                                                                                                    |   ✅    |   ✅    |   ✅        |              |
+|       | [Custom Prompt](./tools/custom_prompt.md){:target="_blank"} 💎                                                        |   ✅    |   ✅    |     ✅     |      ✅       |
+|       | Reflect and Review                                                                                                    |   ✅    |   ✅    |     ✅     |      ✅       |
 |       | Update CHANGELOG.md                                                                                                   |   ✅    |   ✅    |     ✅     |      ️       |
 |       | Find Similar Issue                                                                                                    |   ✅    |        |           |      ️       |
-|       | [Add PR Documentation](./tools/documentation.md){:target="_blank"} 💎                                                 |   ✅    |   ✅    |          |              |
+|       | [Add PR Documentation](./tools/documentation.md){:target="_blank"} 💎                                                 |   ✅    |   ✅    |           |      ✅       |
-|       | [Generate Custom Labels](./tools/describe.md#handle-custom-labels-from-the-repos-labels-page-💎){:target="_blank"} 💎 |   ✅    |   ✅    |            |              |
+|       | [Generate Custom Labels](./tools/describe.md#handle-custom-labels-from-the-repos-labels-page-💎){:target="_blank"} 💎 |   ✅    |   ✅    |           |      ✅       |
-|       | [Analyze PR Components](./tools/analyze.md){:target="_blank"} 💎                                                      |   ✅    |   ✅    |       |              |
+|       | [Analyze PR Components](./tools/analyze.md){:target="_blank"} 💎                                                      |   ✅    |   ✅    |           |      ✅       |
+|       | [Test](https://pr-agent-docs.codium.ai/tools/test/) 💎                                                                | ✅ |   ✅    |           |              |
+|       | [Implement](https://pr-agent-docs.codium.ai/tools/implement/) 💎                                                      | ✅ |   ✅    |     ✅     |              |
 |       |                                                                                                                       |        |        |           |      ️       |
 | USAGE | CLI                                                                                                                   |   ✅    |   ✅    |     ✅     |      ✅       |
 |       | App / webhook                                                                                                         |   ✅    |   ✅    |     ✅     |      ✅       |
@@ -50,11 +54,10 @@ Qodo Merge offers extensive pull request functionalities across various git prov
 |       | Repo language prioritization                                                                                          |   ✅    |   ✅    |     ✅     |      ✅       |
 |       | Adaptive and token-aware file patch fitting                                                                           |   ✅    |   ✅    |     ✅     |      ✅       |
 |       | Multiple models support                                                                                               |   ✅    |   ✅    |     ✅     |      ✅       |
-|       | Incremental PR review                                                                                                 |   ✅    |        |            |              |
+|       | [Static code analysis](./core-abilities/static_code_analysis/){:target="_blank"} 💎                                   |   ✅    |   ✅    |           |              |
-|       | [Static code analysis](./tools/analyze.md/){:target="_blank"} 💎                                                      |   ✅    |   ✅     |    ✅    |              |
+|       | [Multiple configuration options](./usage-guide/configuration_options.md){:target="_blank"} 💎                         |   ✅    |   ✅    |     ✅     |      ✅       |
-|       | [Multiple configuration options](./usage-guide/configuration_options.md){:target="_blank"} 💎                         |   ✅    |   ✅     |    ✅    |              |
 
-💎 marks a feature available only in [Qodo Merge Pro](https://www.codium.ai/pricing/){:target="_blank"}
+💎 marks a feature available only in [Qodo Merge](https://www.codium.ai/pricing/){:target="_blank"}, and not in the open-source version.
 
 
 ## Example Results
@@ -90,4 +93,4 @@ The following diagram illustrates Qodo Merge tools and their flow:
 
 ![Qodo Merge Tools](https://codium.ai/images/pr_agent/diagram-v0.9.png)
 
-Check out the [core abilities](core-abilities/index.md) page for a comprehensive overview of the variety of core abilities used by Qodo Merge.
+Check out the [PR Compression strategy](core-abilities/index.md) page for more details on how we convert a code diff to a manageable LLM prompt

docs/docs/installation/azure.md

@@ -1,5 +1,5 @@
 ## Azure DevOps Pipeline
-You can use a pre-built Action Docker image to run Qodo Merge as an Azure devops pipeline.
+You can use a pre-built Action Docker image to run PR-Agent as an Azure devops pipeline.
 add the following file to your repository under `azure-pipelines.yml`:
 ```yaml
 # Opt out of CI triggers
@@ -51,10 +51,12 @@ stages:
 ```
 This script will run Qodo Merge on every new merge request, with the `improve`, `review`, and `describe` commands.
 Note that you need to export the `azure_devops__pat` and `OPENAI_KEY` variables in the Azure DevOps pipeline settings (Pipelines -> Library -> + Variable group):
-![Qodo Merge Pro](https://codium.ai/images/pr_agent/azure_devops_pipeline_secrets.png){width=468}
+
+![Qodo Merge](https://codium.ai/images/pr_agent/azure_devops_pipeline_secrets.png){width=468}
 
 Make sure to give pipeline permissions to the `pr_agent` variable group.
 
+> Note that Azure Pipelines lacks support for triggering workflows from PR comments. If you find a viable solution, please contribute it to our [issue tracker](https://github.com/Codium-ai/pr-agent/issues)
 
 ## Azure DevOps from CLI
 
@@ -78,7 +80,7 @@ org = "https://dev.azure.com/YOUR_ORGANIZATION/"
 # pat = "YOUR_PAT_TOKEN" needed only if using PAT for authentication
 ```
 
-### Azure DevOps Webhook
+## Azure DevOps Webhook
 
 To trigger from an Azure webhook, you need to manually [add a webhook](https://learn.microsoft.com/en-us/azure/devops/service-hooks/services/webhooks?view=azure-devops).
 Use the "Pull request created" type to trigger a review, or "Pull request commented on" to trigger any supported comment with /<command> <args> comment on the relevant PR. Note that for the "Pull request commented on" trigger, only API v2.0 is supported.

docs/docs/installation/bitbucket.md

@@ -27,10 +27,6 @@ You can get a Bitbucket token for your repository by following Repository Settin
 Note that comments on a PR are not supported in Bitbucket Pipeline.
 
 
-## Run using CodiumAI-hosted Bitbucket app 💎
-
-Please contact visit [Qodo Merge Pro](https://www.codium.ai/pricing/) if you're interested in a hosted BitBucket app solution that provides full functionality including PR reviews and comment handling. It's based on the [bitbucket_app.py](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/git_providers/bitbucket_provider.py) implementation.
-
 
 ## Bitbucket Server and Data Center
 

docs/docs/installation/github.md

@@ -1,6 +1,6 @@
 ## Run as a GitHub Action
 
-You can use our pre-built Github Action Docker image to run Qodo Merge as a Github Action.
+You can use our pre-built Github Action Docker image to run PR-Agent as a Github Action.
 
 1) Add the following file to your repository under `.github/workflows/pr_agent.yml`:
 
@@ -21,7 +21,7 @@ jobs:
     steps:
       - name: PR Agent action step
         id: pragent
-        uses: Codium-ai/pr-agent@main
+        uses: qodo-ai/pr-agent@main
         env:
           OPENAI_KEY: ${{ secrets.OPENAI_KEY }}
           GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}

docs/docs/installation/gitlab.md

@@ -1,5 +1,5 @@
 ## Run as a GitLab Pipeline
-You can use a pre-built Action Docker image to run Qodo Merge as a GitLab pipeline. This is a simple way to get started with Qodo Merge without setting up your own server.
+You can use a pre-built Action Docker image to run PR-Agent as a GitLab pipeline. This is a simple way to get started with Qodo Merge without setting up your own server.
 
 (1) Add the following file to your repository under `.gitlab-ci.yml`:
 ```yaml
@@ -38,6 +38,7 @@ You can also modify the `script` section to run different Qodo Merge commands, o
 
 Note that if your base branches are not protected, don't set the variables as `protected`, since the pipeline will not have access to them.
 
+> **Note**: The `$CI_SERVER_FQDN` variable is available starting from GitLab version 16.10. If you're using an earlier version, this variable will not be available. However, you can combine `$CI_SERVER_HOST` and `$CI_SERVER_PORT` to achieve the same result. Please ensure you're using a compatible version or adjust your configuration.
 
 
 ## Run a GitLab webhook server

docs/docs/installation/index.md

@@ -1,21 +1,17 @@
 # Installation
 
-## Self-hosted Qodo Merge
+## Self-hosted PR-Agent
-If you choose to host your own Qodo Merge, you first need to acquire two tokens:
 
-1. An OpenAI key from [here](https://platform.openai.com/api-keys), with access to GPT-4 (or a key for other [language models](https://qodo-merge-docs.qodo.ai/usage-guide/changing_a_model/), if you prefer).
+There are several ways to use self-hosted PR-Agent:
-2. A GitHub\GitLab\BitBucket personal access token (classic), with the repo scope. [GitHub from [here](https://github.com/settings/tokens)]
-
-There are several ways to use self-hosted Qodo Merge:
 
 - [Locally](./locally.md)
-- [GitHub](./github.md)
+- [GitHub integration](./github.md)
-- [GitLab](./gitlab.md)
+- [GitLab integration](./gitlab.md)
-- [BitBucket](./bitbucket.md)
+- [BitBucket integration](./bitbucket.md)
-- [Azure DevOps](./azure.md)
+- [Azure DevOps integration](./azure.md)
 
-## Qodo Merge Pro 💎
+## Qodo Merge 💎
-Qodo Merge Pro, an app hosted by CodiumAI for GitHub\GitLab\BitBucket, is also available. 
+Qodo Merge, an app hosted by QodoAI for GitHub\GitLab\BitBucket, is also available.
 <br>
-With Qodo Merge Pro, installation is as simple as signing up and adding the Qodo Merge app to your relevant repo. 
+With Qodo Merge, installation is as simple as adding the Qodo Merge app to your relevant repositories.
-See [here](https://qodo-merge-docs.qodo.ai/installation/pr_agent_pro/) for more details.
+See [here](https://qodo-merge-docs.qodo.ai/installation/qodo_merge/) for more details.

docs/docs/installation/locally.md

@@ -1,3 +1,77 @@
+To run PR-Agent locally, you first need to acquire two keys:
+
+1. An OpenAI key from [here](https://platform.openai.com/api-keys){:target="_blank"}, with access to GPT-4 (or a key for other [language models](https://qodo-merge-docs.qodo.ai/usage-guide/changing_a_model/), if you prefer).
+2. A personal access token from your Git platform (GitHub, GitLab, BitBucket) with repo scope. GitHub token, for example, can be issued from [here](https://github.com/settings/tokens){:target="_blank"}
+
+
+## Using Docker image
+
+A list of the relevant tools can be found in the [tools guide](../tools/ask.md).
+
+To invoke a tool (for example `review`), you can run PR-Agent directly from the Docker image. Here's how:
+
+- For GitHub:
+    ```
+    docker run --rm -it -e OPENAI.KEY=<your key> -e GITHUB.USER_TOKEN=<your token> codiumai/pr-agent:latest --pr_url <pr_url> review
+    ```
+    If you are using GitHub enterprise server, you need to specify the custom url as variable.
+    For example, if your GitHub server is at `https://github.mycompany.com`, add the following to the command:
+    ```
+    -e GITHUB.BASE_URL=https://github.mycompany.com/api/v3
+    ```
+
+- For GitLab:
+    ```
+    docker run --rm -it -e OPENAI.KEY=<your key> -e CONFIG.GIT_PROVIDER=gitlab -e GITLAB.PERSONAL_ACCESS_TOKEN=<your token> codiumai/pr-agent:latest --pr_url <pr_url> review
+    ```
+
+    If you have a dedicated GitLab instance, you need to specify the custom url as variable:
+    ```
+    -e GITLAB.URL=<your gitlab instance url>
+    ```
+
+- For BitBucket:
+    ```
+    docker run --rm -it -e CONFIG.GIT_PROVIDER=bitbucket -e OPENAI.KEY=$OPENAI_API_KEY -e BITBUCKET.BEARER_TOKEN=$BITBUCKET_BEARER_TOKEN codiumai/pr-agent:latest --pr_url=<pr_url> review
+    ```
+
+For other git providers, update `CONFIG.GIT_PROVIDER` accordingly and check the [`pr_agent/settings/.secrets_template.toml`](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/settings/.secrets_template.toml) file for environment variables expected names and values.
+
+### Utilizing environment variables
+
+It is also possible to provide or override the configuration by setting the corresponding environment variables.
+You can define the corresponding environment variables by following this convention: `<TABLE>__<KEY>=<VALUE>` or `<TABLE>.<KEY>=<VALUE>`.
+The `<TABLE>` refers to a table/section in a configuration file and `<KEY>=<VALUE>` refers to the key/value pair of a setting in the configuration file.
+
+For example, suppose you want to run `pr_agent` that connects to a self-hosted GitLab instance similar to an example above.
+You can define the environment variables in a plain text file named `.env` with the following content:
+
+```
+CONFIG__GIT_PROVIDER="gitlab"
+GITLAB__URL="<your url>"
+GITLAB__PERSONAL_ACCESS_TOKEN="<your token>"
+OPENAI__KEY="<your key>"
+```
+
+Then, you can run `pr_agent` using Docker with the following command:
+
+```shell
+docker run --rm -it --env-file .env codiumai/pr-agent:latest <tool> <tool parameter>
+```
+
+---
+
+### I get an error when running the Docker image. What should I do?
+
+If you encounter an error when running the Docker image, it is almost always due to a misconfiguration of api keys or tokens.
+
+Note that litellm, which is used by pr-agent, sometimes returns non-informative error messages such as `APIError: OpenAIException - Connection error.`
+Carefully check the api keys and tokens you provided and make sure they are correct.
+Adjustments may be needed depending on your llm provider.
+
+For example, for Azure OpenAI, additional keys are [needed](https://qodo-merge-docs.qodo.ai/usage-guide/changing_a_model/#azure).
+Same goes for other providers, make sure to check the [documentation](https://qodo-merge-docs.qodo.ai/usage-guide/changing_a_model/#changing-a-model)
+
 ## Using pip package
 
 Install the package:
@@ -35,40 +109,6 @@ if __name__ == '__main__':
     main()
 ```
 
-## Using Docker image
-
-A list of the relevant tools can be found in the [tools guide](../tools/ask.md).
-
-To invoke a tool (for example `review`), you can run directly from the Docker image. Here's how:
-
-- For GitHub:
-    ```
-    docker run --rm -it -e OPENAI.KEY=<your key> -e GITHUB.USER_TOKEN=<your token> codiumai/pr-agent:latest --pr_url <pr_url> review
-    ```
-    If you are using GitHub enterprise server, you need to specify the custom url as variable.    
-    For example, if your GitHub server is at `https://github.mycompany.com`, add the following to the command:
-    ```
-    -e GITHUB.BASE_URL=https://github.mycompany.com/api/v3
-    ```
-
-- For GitLab:
-    ```
-    docker run --rm -it -e OPENAI.KEY=<your key> -e CONFIG.GIT_PROVIDER=gitlab -e GITLAB.PERSONAL_ACCESS_TOKEN=<your token> codiumai/pr-agent:latest --pr_url <pr_url> review
-    ```
-
-    If you have a dedicated GitLab instance, you need to specify the custom url as variable:
-    ```
-    -e GITLAB.URL=<your gitlab instance url> 
-    ```
-
-- For BitBucket:
-    ```
-    docker run --rm -it -e CONFIG.GIT_PROVIDER=bitbucket -e OPENAI.KEY=$OPENAI_API_KEY -e BITBUCKET.BEARER_TOKEN=$BITBUCKET_BEARER_TOKEN codiumai/pr-agent:latest --pr_url=<pr_url> review
-    ```
-
-For other git providers, update CONFIG.GIT_PROVIDER accordingly, and check the `pr_agent/settings/.secrets_template.toml` file for the environment variables expected names and values.
-
----
 
 ## Run from source
 

docs/docs/installation/pr_agent.md

@@ -0,0 +1,49 @@
+# PR-Agent Installation Guide
+
+PR-Agent can be deployed in various environments and platforms. Choose the installation method that best suits your needs:
+
+## 🖥️ Local Installation
+
+Learn how to run PR-Agent locally using:
+
+- Docker image
+- pip package
+- CLI from source code
+
+[View Local Installation Guide →](https://qodo-merge-docs.qodo.ai/installation/locally/)
+
+## 🐙 GitHub Integration
+
+Set up PR-Agent with GitHub as:
+
+- GitHub Action
+- Local GitHub App
+
+[View GitHub Integration Guide →](https://qodo-merge-docs.qodo.ai/installation/github/)
+
+## 🦊 GitLab Integration
+
+Deploy PR-Agent on GitLab as:
+
+- GitLab pipeline job
+- Local GitLab webhook server
+
+[View GitLab Integration Guide →](https://qodo-merge-docs.qodo.ai/installation/gitlab/)
+
+## 🟦 BitBucket Integration
+
+Implement PR-Agent in BitBucket as:
+
+- BitBucket pipeline job
+- Local BitBucket server
+
+[View BitBucket Integration Guide →](https://qodo-merge-docs.qodo.ai/installation/bitbucket/)
+
+## 🔷  Azure DevOps Integration
+
+Configure PR-Agent with Azure DevOps as:
+
+- Azure DevOps pipeline job
+- Local Azure DevOps webhook
+
+[View Azure DevOps Integration Guide →](https://qodo-merge-docs.qodo.ai/installation/azure/)

docs/docs/installation/pr_agent_pro.md

@@ -1,68 +0,0 @@
-
-## Getting Started with Qodo Merge Pro
-
-Qodo Merge Pro is a versatile application compatible with GitHub, GitLab, and BitBucket, hosted by CodiumAI.
-See [here](https://qodo-merge-docs.qodo.ai/overview/pr_agent_pro/) for more details about the benefits of using Qodo Merge Pro.
-
-Interested parties can subscribe to Qodo Merge Pro through the following [link](https://www.codium.ai/pricing/). 
-After subscribing, you are granted the ability to easily install the application across any of your repositories.
-
-![Qodo Merge Pro](https://codium.ai/images/pr_agent/pr_agent_pro_install.png){width=468}
-
-Each user who wants to use Qodo Merge pro needs to buy a seat. 
-Initially, CodiumAI offers a two-week trial period at no cost, after which continued access requires each user to secure a personal seat.
-Once a user acquires a seat, they gain the flexibility to use Qodo Merge Pro across any repository where it was enabled.
-
-Users without a purchased seat who interact with a repository featuring Qodo Merge Pro are entitled to receive up to five complimentary feedbacks.
-Beyond this limit, Qodo Merge Pro will cease to respond to their inquiries unless a seat is purchased.
-
-## Install Qodo Merge Pro for GitHub Enterprise Server
-
-To use Qodo Merge Pro application on your private GitHub Enterprise Server, you will need to contact us for starting an [Enterprise](https://www.codium.ai/pricing/) trial.
-
-
-## Install Qodo Merge Pro for GitLab (Teams & Enterprise)
-
-Since GitLab platform does not support apps, installing Qodo Merge Pro for GitLab is a bit more involved, and requires the following steps:
-
-### Step 1
-
-Acquire a personal, project or group level access token. Enable the “api” scope in order to allow Qodo Merge to read pull requests, comment and respond to requests.
-
-<figure markdown="1">
-![Step 1](https://www.codium.ai/images/pr_agent/gitlab_pro_pat.png){width=750}
-</figure>
-
-Store the token in a safe place, you won’t be able to access it again after it was generated.
-
-### Step 2
-
-Generate a shared secret and link it to the access token. Browse to [https://register.gitlab.pr-agent.codium.ai](https://register.gitlab.pr-agent.codium.ai).
-Fill in your generated GitLab token and your company or personal name in the appropriate fields and click "Submit".
-
-You should see "Success!" displayed above the Submit button, and a shared secret will be generated. Store it in a safe place, you won’t be able to access it again after it was generated.
-
-### Step 3
-
-Install a webhook for your repository or groups, by clicking “webhooks” on the settings menu. Click the “Add new webhook” button.
-
-<figure markdown="1">
-![Step 3.1](https://www.codium.ai/images/pr_agent/gitlab_pro_add_webhook.png)
-</figure>
-
-In the webhook definition form, fill in the following fields:
-URL: https://pro.gitlab.pr-agent.codium.ai/webhook
-
-Secret token: Your CodiumAI key
-Trigger: Check the ‘comments’ and ‘merge request events’ boxes.
-Enable SSL verification: Check the box.
-
-<figure markdown="1">
-![Step 3.2](https://www.codium.ai/images/pr_agent/gitlab_pro_webhooks.png){width=750}
-</figure>
-
-### Step 4
-
-You’re all set!
-
-Open a new merge request or add a MR comment with one of Qodo Merge’s commands such as /review, /describe or /improve.

docs/docs/installation/qodo_merge.md

@@ -0,0 +1,87 @@
+Qodo Merge is a versatile application compatible with GitHub, GitLab, and BitBucket, hosted by QodoAI.
+See [here](https://qodo-merge-docs.qodo.ai/overview/pr_agent_pro/) for more details about the benefits of using Qodo Merge.
+
+A complimentary two-week trial is provided to all new users. Following the trial period, user licenses (seats) are required for continued access.
+To purchase user licenses, please visit our [pricing page](https://www.qodo.ai/pricing/).
+Once subscribed, users can seamlessly deploy the application across any of their code repositories.
+
+## Install Qodo Merge for GitHub
+
+### GitHub Cloud
+
+Qodo Merge for GitHub cloud is available for installation through the [GitHub Marketplace](https://github.com/apps/qodo-merge-pro).
+
+![Qodo Merge](https://codium.ai/images/pr_agent/pr_agent_pro_install.png){width=468}
+
+### GitHub Enterprise Server
+
+To use Qodo Merge application on your private GitHub Enterprise Server, you will need to [contact](https://www.qodo.ai/contact/#pricing) Qodo for starting an Enterprise trial.
+
+### GitHub Open Source Projects
+
+For open-source projects, Qodo Merge is available for free usage. To install Qodo Merge for your open-source repositories, use the following marketplace [link](https://github.com/apps/qodo-merge-pro-for-open-source).
+
+## Install Qodo Merge for Bitbucket
+
+###  Bitbucket Cloud
+
+Qodo Merge for Bitbucket Cloud is available for installation through the following [link](https://bitbucket.org/site/addons/authorize?addon_key=d6df813252c37258)
+
+![Qodo Merge](https://qodo.ai/images/pr_agent/pr_agent_pro_bitbucket_install.png){width=468}
+
+### Bitbucket Server
+
+To use Qodo Merge application on your private Bitbucket Server, you will need to contact us for starting an [Enterprise](https://www.qodo.ai/pricing/) trial.
+
+
+## Install Qodo Merge for GitLab 
+
+### GitLab Cloud
+
+Since GitLab platform does not support apps, installing Qodo Merge for GitLab is a bit more involved, and requires the following steps:
+
+#### Step 1
+
+Acquire a personal, project or group level access token. Enable the “api” scope in order to allow Qodo Merge to read pull requests, comment and respond to requests.
+
+<figure markdown="1">
+![Step 1](https://www.codium.ai/images/pr_agent/gitlab_pro_pat.png){width=750}
+</figure>
+
+Store the token in a safe place, you won’t be able to access it again after it was generated.
+
+#### Step 2
+
+Generate a shared secret and link it to the access token. Browse to [https://register.gitlab.pr-agent.codium.ai](https://register.gitlab.pr-agent.codium.ai).
+Fill in your generated GitLab token and your company or personal name in the appropriate fields and click "Submit".
+
+You should see "Success!" displayed above the Submit button, and a shared secret will be generated. Store it in a safe place, you won’t be able to access it again after it was generated.
+
+#### Step 3
+
+Install a webhook for your repository or groups, by clicking “webhooks” on the settings menu. Click the “Add new webhook” button.
+
+<figure markdown="1">
+![Step 3.1](https://www.codium.ai/images/pr_agent/gitlab_pro_add_webhook.png)
+</figure>
+
+In the webhook definition form, fill in the following fields:
+URL: https://pro.gitlab.pr-agent.codium.ai/webhook
+
+Secret token: Your QodoAI key
+Trigger: Check the ‘comments’ and ‘merge request events’ boxes.
+Enable SSL verification: Check the box.
+
+<figure markdown="1">
+![Step 3.2](https://www.codium.ai/images/pr_agent/gitlab_pro_webhooks.png){width=750}
+</figure>
+
+#### Step 4
+
+You’re all set!
+
+Open a new merge request or add a MR comment with one of Qodo Merge’s commands such as /review, /describe or /improve.
+
+### GitLab Server
+
+For a trial period of two weeks on your private GitLab Server, the same [installation steps](#gitlab-cloud) as for GitLab Cloud apply. After the trial period, you will need to [contact](https://www.qodo.ai/contact/#pricing) Qodo for moving to an Enterprise account.

docs/docs/overview/data_privacy.md

@@ -1,12 +1,12 @@
-## Self-hosted Qodo Merge
+## Self-hosted PR-Agent
 
-- If you self-host Qodo Merge with your OpenAI (or other LLM provider) API key, it is between you and the provider. We don't send your code data to Qodo Merge servers.
+- If you self-host PR-Agent with your OpenAI (or other LLM provider) API key, it is between you and the provider. We don't send your code data to Qodo servers.
 
-## Qodo Merge Pro 💎
+## Qodo Merge 💎
 
-- When using Qodo Merge Pro 💎, hosted by CodiumAI, we will not store any of your data, nor will we use it for training. You will also benefit from an OpenAI account with zero data retention.
+- When using Qodo Merge💎, hosted by Qodo, we will not store any of your data, nor will we use it for training. You will also benefit from an OpenAI account with zero data retention.
 
-- For certain clients, CodiumAI-hosted Qodo Merge Pro will use CodiumAI’s proprietary models. If this is the case, you will be notified.
+- For certain clients, Qodo Merge will use Qodo’s proprietary models. If this is the case, you will be notified.
 
 - No passive collection of Code and Pull Requests’ data — Qodo Merge will be active only when you invoke it, and it will then extract and analyze only data relevant to the executed command and queried pull request.
 

docs/docs/overview/index.md

@@ -1,93 +0,0 @@
-# Overview
-
-Qodo Merge is an open-source tool to help efficiently review and handle pull requests.
-
-- See the [Installation Guide](./installation/index.md) for instructions on installing and running the tool on different git platforms.
-
-- See the [Usage Guide](./usage-guide/index.md) for instructions on running the Qodo Merge commands via different interfaces, including _CLI_, _online usage_, or by _automatically triggering_ them when a new PR is opened.
-
-- See the [Tools Guide](./tools/index.md) for a detailed description of the different tools.
-
-
-## Qodo Merge Docs Smart Search
-
-To search the documentation site using natural language:
-
-1) Comment `/help "your question"` in either:
-
-   - A pull request where Qodo Merge is installed
-   - A [PR Chat](https://qodo-merge-docs.qodo.ai/chrome-extension/features/#pr-chat)
-
-2) Qodo Merge will respond with an [answer](https://github.com/Codium-ai/pr-agent/pull/1241#issuecomment-2365259334) that includes relevant documentation links.
-
-
-## Qodo Merge Features
-
-Qodo Merge offers extensive pull request functionalities across various git providers.
-
-|       |                                                                                                                       | GitHub | Gitlab | Bitbucket | Azure DevOps |
-|-------|-----------------------------------------------------------------------------------------------------------------------|:------:|:------:|:---------:|:------------:|
-| TOOLS | Review                                                                                                                |   ✅    |   ✅    |   ✅       |      ✅      |
-|       | ⮑ Incremental                                                                                                         |   ✅    |        |            |              |
-|       | Ask                                                                                                                   |   ✅    |   ✅    |   ✅        |      ✅      |
-|       | Describe                                                                                                              |   ✅    |   ✅    |   ✅        |      ✅      |
-|       | ⮑ [Inline file summary](https://qodo-merge-docs.qodo.ai/tools/describe/#inline-file-summary){:target="_blank"} 💎     |   ✅    |   ✅    |           |      ✅      |
-|       | Improve                                                                                                               |   ✅    |   ✅    |   ✅        |      ✅      |
-|       | ⮑ Extended                                                                                                            |   ✅    |   ✅    |   ✅        |      ✅      |
-|       | [Custom Prompt](./tools/custom_prompt.md){:target="_blank"} 💎                                                        |   ✅    |   ✅    |   ✅        |      ✅      |
-|       | Reflect and Review                                                                                                    |   ✅    |   ✅    |   ✅        |      ✅      |
-|       | Update CHANGELOG.md                                                                                                   |   ✅    |   ✅    |   ✅        |      ️       |
-|       | Find Similar Issue                                                                                                    |   ✅    |        |             |      ️       |
-|       | [Add PR Documentation](./tools/documentation.md){:target="_blank"} 💎                                                 |   ✅    |   ✅    |          |      ✅      |
-|       | [Generate Custom Labels](./tools/describe.md#handle-custom-labels-from-the-repos-labels-page-💎){:target="_blank"} 💎 |   ✅    |   ✅    |            |      ✅      |
-|       | [Analyze PR Components](./tools/analyze.md){:target="_blank"} 💎                                                      |   ✅    |   ✅    |       |      ✅      |
-|       |                                                                                                                       |        |        |            |      ️       |
-| USAGE | CLI                                                                                                                   |   ✅    |   ✅    |   ✅       |      ✅      |
-|       | App / webhook                                                                                                         |   ✅    |   ✅    |    ✅        |      ✅      |
-|       | Actions                                                                                                               |   ✅    |        |            |      ️       |
-|       |                                                                                                                       |        |        |            |
-| CORE  | PR compression                                                                                                        |   ✅    |   ✅    |   ✅       |   ✅        |
-|       | Repo language prioritization                                                                                          |   ✅    |   ✅    |   ✅       |   ✅        |
-|       | Adaptive and token-aware file patch fitting                                                                           |   ✅    |   ✅    |   ✅     |   ✅        |
-|       | Multiple models support                                                                                               |   ✅    |   ✅    |   ✅       |   ✅        |
-|       | Incremental PR review                                                                                                 |   ✅    |        |            |           |
-|       | [Static code analysis](./tools/analyze.md/){:target="_blank"} 💎                                                      |   ✅    |   ✅     |    ✅    |   ✅        |
-|       | [Multiple configuration options](./usage-guide/configuration_options.md){:target="_blank"} 💎                         |   ✅    |   ✅     |    ✅    |   ✅        |
-
-💎 marks a feature available only in [Qodo Merge Pro](https://www.codium.ai/pricing/){:target="_blank"}
-
-
-## Example Results
-<hr>
-
-#### [/describe](https://github.com/Codium-ai/pr-agent/pull/530)
-<figure markdown="1">
-![/describe](https://www.codium.ai/images/pr_agent/describe_new_short_main.png){width=512}
-</figure>
-<hr>
-
-#### [/review](https://github.com/Codium-ai/pr-agent/pull/732#issuecomment-1975099151)
-<figure markdown="1">
-![/review](https://www.codium.ai/images/pr_agent/review_new_short_main.png){width=512}
-</figure>
-<hr>
-
-#### [/improve](https://github.com/Codium-ai/pr-agent/pull/732#issuecomment-1975099159)
-<figure markdown="1">
-![/improve](https://www.codium.ai/images/pr_agent/improve_new_short_main.png){width=512}
-</figure>
-<hr>
-
-#### [/generate_labels](https://github.com/Codium-ai/pr-agent/pull/530)
-<figure markdown="1">
-![/generate_labels](https://www.codium.ai/images/pr_agent/geneare_custom_labels_main_short.png){width=300}
-</figure>
-<hr>
-
-## How it Works
-
-The following diagram illustrates Qodo Merge tools and their flow:
-
-![Qodo Merge Tools](https://codium.ai/images/pr_agent/diagram-v0.9.png)
-
-Check out the [PR Compression strategy](core-abilities/index.md) page for more details on how we convert a code diff to a manageable LLM prompt

docs/docs/overview/pr_agent_pro.md

@@ -1,21 +1,21 @@
 ### Overview
 
-[Qodo Merge Pro](https://www.codium.ai/pricing/) is a hosted version of Qodo Merge, provided by Qodo. A complimentary two-week trial is offered, followed by a monthly subscription fee.
+[Qodo Merge](https://www.codium.ai/pricing/){:target="_blank"} is a paid, hosted version of open-source [PR-Agent](https://github.com/Codium-ai/pr-agent){:target="_blank"}. A complimentary two-week trial is offered, followed by a monthly subscription fee.
-Qodo Merge Pro is designed for companies and teams that require additional features and capabilities. It provides the following benefits:
+Qodo Merge is designed for companies and teams that require additional features and capabilities. It provides the following benefits:
 
 1. **Fully managed** - We take care of everything for you - hosting, models, regular updates, and more. Installation is as simple as signing up and adding the Qodo Merge app to your GitHub\GitLab\BitBucket repo.
 
-2. **Improved privacy** - No data will be stored or used to train models. Qodo Merge Pro will employ zero data retention, and will use an OpenAI and Claude accounts with zero data retention.
+2. **Improved privacy** - No data will be stored or used to train models. Qodo Merge will employ zero data retention, and will use an OpenAI and Claude accounts with zero data retention.
 
-3. **Improved support** - Qodo Merge Pro users will receive priority support, and will be able to request new features and capabilities.
+3. **Improved support** - Qodo Merge users will receive priority support, and will be able to request new features and capabilities.
 
-4. **Supporting self-hosted git servers** - Qodo Merge Pro can be installed on GitHub Enterprise Server, GitLab, and BitBucket. For more information, see the [installation guide](https://qodo-merge-docs.qodo.ai/installation/pr_agent_pro/).
+4. **Supporting self-hosted git servers** - Qodo Merge can be installed on GitHub Enterprise Server, GitLab, and BitBucket. For more information, see the [installation guide](https://qodo-merge-docs.qodo.ai/installation/pr_agent_pro/).
 
-5. **PR Chat** - Qodo Merge Pro allows you to engage in [private chat](https://qodo-merge-docs.qodo.ai/chrome-extension/features/#pr-chat) about your pull requests on private repositories.
+5. **PR Chat** - Qodo Merge allows you to engage in [private chat](https://qodo-merge-docs.qodo.ai/chrome-extension/features/#pr-chat) about your pull requests on private repositories.
 
 ### Additional features
 
-Here are some of the additional features and capabilities that Qodo Merge Pro offers:
+Here are some of the additional features and capabilities that Qodo Merge offers:
 
 | Feature                                                                                                              | Description                                                                                                                                                      |
 |----------------------------------------------------------------------------------------------------------------------|------------------------------------------------------------------------------------------------------------------------------------------------------------------|
@@ -24,28 +24,29 @@ Here are some of the additional features and capabilities that Qodo Merge Pro of
 | [**Apply suggestions**](https://qodo-merge-docs.qodo.ai/tools/improve/#overview)                                     | Generate committable code from the relevant suggestions interactively by clicking on a checkbox                                                                   |
 | [**Suggestions impact**](https://qodo-merge-docs.qodo.ai/tools/improve/#assessing-impact)                         | Automatically mark suggestions that were implemented by the user (either directly in GitHub, or indirectly in the IDE) to enable tracking of the impact of the suggestions |
 | [**CI feedback**](https://qodo-merge-docs.qodo.ai/tools/ci_feedback/) | Automatically analyze failed CI checks on GitHub and provide actionable feedback in the PR conversation, helping to resolve issues quickly |
-| [**Advanced usage statistics**](https://www.codium.ai/contact/#/)                                                    | Qodo Merge Pro offers detailed statistics at user, repository, and company levels, including metrics about Qodo Merge usage, and also general statistics and insights |
+| [**Advanced usage statistics**](https://www.codium.ai/contact/#/)                                                    | Qodo Merge offers detailed statistics at user, repository, and company levels, including metrics about Qodo Merge usage, and also general statistics and insights |
 | [**Incorporating companies' best practices**](https://qodo-merge-docs.qodo.ai/tools/improve/#best-practices)         | Use the companies' best practices as reference to increase the effectiveness and the relevance of the code suggestions                                           |
 | [**Interactive triggering**](https://qodo-merge-docs.qodo.ai/tools/analyze/#example-usage)                           | Interactively apply different tools via the `analyze` command                                                                                                    |
 | [**Custom labels**](https://qodo-merge-docs.qodo.ai/tools/describe/#handle-custom-labels-from-the-repos-labels-page) | Define custom labels for Qodo Merge to assign to the PR                                                                                                           |
 
 ### Additional tools
 
-Here are additional tools that are available only for Qodo Merge Pro users:
+Here are additional tools that are available only for Qodo Merge users:
 
 | Feature                                                                               | Description |
-|---------|-------------|
+|---------------------------------------------------------------------------------------|-------------|
 | [**Custom Prompt Suggestions**](https://qodo-merge-docs.qodo.ai/tools/custom_prompt/) | Generate code suggestions based on custom prompts from the user |
 | [**Analyze PR components**](https://qodo-merge-docs.qodo.ai/tools/analyze/)           | Identify the components that changed in the PR, and enable to interactively apply different tools to them |
 | [**Tests**](https://qodo-merge-docs.qodo.ai/tools/test/)                              | Generate tests for code components that changed in the PR |
 | [**PR documentation**](https://qodo-merge-docs.qodo.ai/tools/documentation/)          | Generate docstring for code components that changed in the PR |
 | [**Improve Component**](https://qodo-merge-docs.qodo.ai/tools/improve_component/)     | Generate code suggestions for code components that changed in the PR |
 | [**Similar code search**](https://qodo-merge-docs.qodo.ai/tools/similar_code/)        | Search for similar code in the repository, organization, or entire GitHub |
+| [**Code implementation**](https://qodo-merge-docs.qodo.ai/tools/implement/)        | Generates implementation code from review suggestions |
 
 
 ### Supported languages
 
-Qodo Merge Pro leverages the world's leading code models - Claude 3.5 Sonnet and GPT-4. 
+Qodo Merge leverages the world's leading code models - Claude 3.5 Sonnet and GPT-4.
 As a result, its primary tools such as `describe`, `review`, and `improve`, as well as the PR-chat feature, support virtually all programming languages.
 
-For specialized commands that require static code analysis, Qodo Merge Pro offers support for specific languages. For more details about features that require static code analysis, please refer to the [documentation](https://qodo-merge-docs.qodo.ai/tools/analyze/#overview).
+For specialized commands that require static code analysis, Qodo Merge offers support for specific languages. For more details about features that require static code analysis, please refer to the [documentation](https://qodo-merge-docs.qodo.ai/tools/analyze/#overview).

docs/docs/tools/analyze.md

@@ -14,6 +14,5 @@ An example result:
 
 ![Analyze 1](https://codium.ai/images/pr_agent/analyze_1.png){width=750}
 
-**Notes**
+!!! note "Language that are currently supported:"
-
+    Python, Java, C++, JavaScript, TypeScript, C#.
-- Language that are currently supported: Python, Java, C++, JavaScript, TypeScript, C#.

docs/docs/tools/ask.md

@@ -38,20 +38,20 @@ where `https://real_link_to_image` is the direct link to the image.
 Note that GitHub has a built-in mechanism of pasting images in comments. However, pasted image does not provide a direct link.
 To get a direct link to an image, we recommend using the following scheme:
 
-1) First, post a comment that contains **only** the image:
+1\. First, post a comment that contains **only** the image:
 
 ![Ask image1](https://codium.ai/images/pr_agent/ask_images1.png){width=512}
 
-2) Quote reply to that comment:
+2\. Quote reply to that comment:
 
 ![Ask image2](https://codium.ai/images/pr_agent/ask_images2.png){width=512}
 
-3) In the screen opened, type the question below the image:
+3\. In the screen opened, type the question below the image:
 
 ![Ask image3](https://codium.ai/images/pr_agent/ask_images3.png){width=512}
 ![Ask image4](https://codium.ai/images/pr_agent/ask_images4.png){width=512}
 
-4) Post the comment, and receive the answer:
+4\. Post the comment, and receive the answer:
 
 ![Ask image5](https://codium.ai/images/pr_agent/ask_images5.png){width=512}
 

docs/docs/tools/custom_labels.md

@@ -28,7 +28,7 @@ When working from CLI, you need to apply the [configuration changes](#configurat
 To enable custom labels, you need to apply the [configuration changes](#configuration-options) to the local `.pr_agent.toml` file in your repository.
 
 #### 3. Handle custom labels from the Repo's labels page 💎
-> This feature is available only in Qodo Merge Pro 
+> This feature is available only in Qodo Merge
 
 * GitHub : `https://github.com/{owner}/{repo}/labels`, or click on the "Labels" tab in the issues or PRs page.
 * GitLab : `https://gitlab.com/{owner}/{repo}/-/labels`, or click on "Manage" -> "Labels" on the left menu.

docs/docs/tools/custom_prompt.md

@@ -51,8 +51,8 @@ Results obtained with the prompt above:
 
 ## Configuration options
 
-`prompt`: the prompt for the tool. It should be a multi-line string.
+- `prompt`: the prompt for the tool. It should be a multi-line string.
 
-`num_code_suggestions`: number of code suggestions provided by the 'custom_prompt' tool. Default is 4.
+- `num_code_suggestions_per_chunk`: number of code suggestions provided by the 'custom_prompt' tool, per chunk. Default is 4.
 
-`enable_help_text`: if set to true, the tool will display a help text in the comment. Default is true.
+- `enable_help_text`: if set to true, the tool will display a help text in the comment. Default is true.

docs/docs/tools/describe.md

@@ -143,7 +143,7 @@ The marker `pr_agent:type` will be replaced with the PR type, `pr_agent:summary`
 
 ![Describe markers before](https://codium.ai/images/pr_agent/describe_markers_before.png){width=512}
 
-→
+becomes
 
 ![Describe markers after](https://codium.ai/images/pr_agent/describe_markers_after.png){width=512}
 

docs/docs/tools/documentation.md

@@ -27,7 +27,6 @@ You can state a name of a specific component in the PR to get documentation only
  - `docs_style`: The exact style of the documentation (for python docstring). you can choose between: `google`, `numpy`, `sphinx`, `restructuredtext`, `plain`. Default is `sphinx`.
  - `extra_instructions`: Optional extra instructions to the tool. For example: "focus on the changes in the file X. Ignore change in ...".
 
-**Notes**
+!!! note "Notes"
-
+    - The following languages are currently supported: Python, Java, C++, JavaScript, TypeScript, C#.
-- Language that are currently fully supported: Python, Java, C++, JavaScript, TypeScript, C#.
+    - This tool can also be triggered interactively by using the [`analyze`](./analyze.md) tool.
-- This tool can also be triggered interactively by using the [`analyze`](./analyze.md) tool.

docs/docs/tools/help.md

@@ -1,6 +1,6 @@
 ## Overview
 The `help` tool provides a list of all the available tools and their descriptions.
-For Qodo Merge Pro users, it also enables to trigger each tool by checking the relevant box.
+For Qodo Merge users, it also enables to trigger each tool by checking the relevant box.
 
 It can be invoked manually by commenting on any PR:
 ```

docs/docs/tools/implement.md

@@ -0,0 +1,54 @@
+`Platforms supported: GitHub, GitLab, Bitbucket`
+
+## Overview
+
+The `implement` tool converts human code review discussions and feedback into ready-to-commit code changes.
+It leverages LLM technology to transform PR comments and review suggestions into concrete implementation code, helping developers quickly turn feedback into working solutions.
+
+## Usage Scenarios
+
+
+### For Reviewers
+
+Reviewers can request code changes by:
+
+1. Selecting the code block to be modified.
+2. Adding a comment with the syntax: 
+```
+/implement <code-change-description>
+```
+
+![implement1](https://codium.ai/images/pr_agent/implement1.png){width=640}
+
+
+### For PR Authors
+
+PR authors can implement suggested changes by replying to a review comment using either: <br>
+1. Add specific implementation details as described above
+```
+/implement <code-change-description>
+```
+2. Use the original review comment as instructions
+```
+/implement
+```
+
+![implement2](https://codium.ai/images/pr_agent/implement2.png){width=640}
+
+### For Referencing Comments
+
+You can reference and implement changes from any comment by:
+```
+/implement <link-to-review-comment>
+```
+
+![implement3](https://codium.ai/images/pr_agent/implement3.png){width=640}
+
+Note that the implementation will occur within the review discussion thread.
+
+
+**Configuration options**
+
+- Use `/implement` to implement code change within and based on the review discussion.
+- Use `/implement <code-change-description>` inside a review discussion to implement specific instructions.
+- Use `/implement <link-to-review-comment>` to indirectly call the tool from any comment.

docs/docs/tools/improve.md

@@ -9,8 +9,9 @@ The tool can be triggered automatically every time a new PR is [opened](../usage
 
 ![code_suggestions_as_comment_open.png](https://codium.ai/images/pr_agent/code_suggestions_as_comment_open.png){width=512}
 
-Note that the `Apply this suggestion` checkbox, which interactively converts a suggestion into a commitable code comment, is available only for Qodo Merge Pro 💎 users.
+!!! note "The following features are available only for Qodo Merge 💎 users:"
-
+    - The `Apply this suggestion` checkbox, which interactively converts a suggestion into a committable code comment
+    - The `More` checkbox to generate additional suggestions
 
 ## Example usage
 
@@ -52,9 +53,10 @@ num_code_suggestions_per_chunk = ...
 - The `pr_commands` lists commands that will be executed automatically when a PR is opened.
 - The `[pr_code_suggestions]` section contains the configurations for the `improve` tool you want to edit (if any)
 
-### Assessing Impact 💎
+### Assessing Impact
+>`💎 feature`
 
-Note that Qodo Merge pro tracks two types of implementations:
+Qodo Merge tracks two types of implementations for tracking implemented suggestions:
 
 - Direct implementation - when the user directly applies the suggestion by clicking the `Apply` checkbox.
 - Indirect implementation - when the user implements the suggestion in their IDE environment. In this case, Qodo Merge will utilize, after each commit, a dedicated logic to identify if a suggestion was implemented, and will mark it as implemented.
@@ -67,10 +69,10 @@ In post-process, Qodo Merge counts the number of suggestions that were implement
 
 ![code_suggestions_asses_impact_stats_2](https://codium.ai/images/pr_agent/code_suggestions_asses_impact_stats_2.png){width=512}
 
-## Suggestion tracking 💎
+## Suggestion tracking
-`Platforms supported: GitHub, GitLab`
+>`💎 feature. Platforms supported: GitHub, GitLab`
 
-Qodo Merge employs an novel detection system to automatically [identify](https://qodo-merge-docs.qodo.ai/core-abilities/impact_evaluation/) AI code suggestions that PR authors have accepted and implemented.
+Qodo Merge employs a novel detection system to automatically [identify](https://qodo-merge-docs.qodo.ai/core-abilities/impact_evaluation/) AI code suggestions that PR authors have accepted and implemented.
 
 Accepted suggestions are also automatically documented in a dedicated wiki page called `.pr_agent_accepted_suggestions`, allowing users to track historical changes, assess the tool's effectiveness, and learn from previously implemented recommendations in the repository.
 An example [result](https://github.com/Codium-ai/pr-agent/wiki/.pr_agent_accepted_suggestions):
@@ -95,6 +97,147 @@ This feature is controlled by a boolean configuration parameter: `pr_code_sugges
 
     Instead, we leverage a dedicated private page, within your repository wiki, to track suggestions. This approach offers convenient secure suggestion tracking while avoiding pull requests or any noise to the main repository.
 
+## `Extra instructions` and `best practices`
+
+The `improve` tool can be further customized by providing additional instructions and best practices to the AI model.
+
+### Extra instructions
+
+You can use the `extra_instructions` configuration option to give the AI model additional instructions for the `improve` tool.
+Be specific, clear, and concise in the instructions. With extra instructions, you are the prompter.
+
+Examples for possible instructions:
+```toml
+[pr_code_suggestions]
+extra_instructions="""\
+(1) Answer in japanese
+(2) Don't suggest to add try-except block
+(3) Ignore changes in toml files
+...
+"""
+```
+Use triple quotes to write multi-line instructions. Use bullet points or numbers to make the instructions more readable.
+
+### Best practices
+
+> `💎 feature. Platforms supported: GitHub, GitLab, Bitbucket`
+
+Another option to give additional guidance to the AI model is by creating a `best_practices.md` file, either in your repository's root directory or as a [**wiki page**](https://github.com/Codium-ai/pr-agent/wiki) (we recommend the wiki page, as editing and maintaining it over time is easier).
+This page can contain a list of best practices, coding standards, and guidelines that are specific to your repo/organization.
+
+The AI model will use this wiki page as a reference, and in case the PR code violates any of the guidelines, it will create additional suggestions, with a dedicated label: `Organization
+best practice`.
+
+Example for a python `best_practices.md` content:
+```markdown
+## Project best practices
+- Make sure that I/O operations are encapsulated in a try-except block
+- Use the `logging` module for logging instead of `print` statements
+- Use `is` and `is not` to compare with `None`
+- Use `if __name__ == '__main__':` to run the code only when the script is executed
+- Use `with` statement to open files
+...
+```
+
+Tips for writing an effective `best_practices.md` file:
+
+- Write clearly and concisely
+- Include brief code examples when helpful
+- Focus on project-specific guidelines, that will result in relevant suggestions you actually want to get
+- Keep the file relatively short, under 800 lines, since:
+    - AI models may not process effectively very long documents
+    - Long files tend to contain generic guidelines already known to AI
+
+#### Local and global best practices
+By default, Qodo Merge will look for a local `best_practices.md` wiki file in the root of the relevant local repo.
+
+If you want to enable also a global `best_practices.md` wiki file, set first in the global configuration file:
+
+```toml
+[best_practices]
+enable_global_best_practices = true
+```
+
+Then, create a `best_practices.md` wiki file in the root of [global](https://qodo-merge-docs.qodo.ai/usage-guide/configuration_options/#global-configuration-file) configuration repository,  `pr-agent-settings`.
+
+#### Best practices for multiple languages
+For a git organization working with multiple programming languages, you can maintain a centralized global `best_practices.md` file containing language-specific guidelines. 
+When reviewing pull requests, Qodo Merge automatically identifies the programming language and applies the relevant best practices from this file.
+
+To do this, structure your `best_practices.md` file using the following format:
+
+```
+# [Python]
+...
+# [Java]
+...
+# [JavaScript]
+...
+```
+
+#### Dedicated label for best practices suggestions
+Best practice suggestions are labeled as `Organization best practice` by default. 
+To customize this label, modify it in your configuration file:
+
+```toml
+[best_practices]
+organization_name = "..."
+```
+
+And the label will be: `{organization_name} best practice`.
+
+
+#### Example results
+
+![best_practice](https://codium.ai/images/pr_agent/org_best_practice.png){width=512}
+
+### Auto best practices
+
+>`💎 feature. Platforms supported: GitHub.`
+
+`Auto best practices` is a novel Qodo Merge capability that:
+
+1. Identifies recurring patterns from accepted suggestions
+2. **Automatically** generates [best practices page](https://github.com/qodo-ai/pr-agent/wiki/.pr_agent_auto_best_practices) based on what your team consistently values
+3. Applies these learned patterns to future code reviews
+
+This creates an automatic feedback loop where the system continuously learns from your team's choices to provide increasingly relevant suggestions. 
+The system maintains two analysis phases:
+
+- Open exploration for new issues
+- Targeted checking against established best practices
+
+Note that when a [custom best practices](https://qodo-merge-docs.qodo.ai/tools/improve/#best-practices) exist, Qodo Merge will still generate an 'auto best practices' wiki file, though it won't use it in the `improve` tool.
+Learn more about utilizing 'auto best practices' in our [detailed guide](https://qodo-merge-docs.qodo.ai/core-abilities/auto_best_practices/).
+
+#### Relevant configurations
+
+```toml
+[auto_best_practices]
+# Disable all auto best practices usage or generation
+enable_auto_best_practices = true  
+
+# Disable usage of auto best practices file in the 'improve' tool
+utilize_auto_best_practices = true 
+
+# Extra instructions to the auto best practices generation prompt
+extra_instructions = ""            
+
+# Max number of patterns to be detected
+max_patterns = 5                   
+```
+
+
+### Combining 'extra instructions' and 'best practices'
+> `💎 feature`
+
+The `extra instructions` configuration is more related to the `improve` tool prompt. It can be used, for example, to avoid specific suggestions ("Don't suggest to add try-except block", "Ignore changes in toml files", ...) or to emphasize specific aspects or formats ("Answer in Japanese", "Give only short suggestions", ...)
+
+In contrast, the `best_practices.md` file is a general guideline for the way code should be written in the repo.
+
+Using a combination of both can help the AI model to provide relevant and tailored suggestions.
+
+
 ## Usage Tips
 
 ### Implementing the proposed code suggestions
@@ -125,6 +268,8 @@ dual_publishing_score_threshold = x
 Where x represents the minimum score threshold (>=) for suggestions to be presented as commitable PR comments in addition to the table. Default is -1 (disabled).
 
 ### Self-review
+> `💎 feature`
+
 If you set in a configuration file:
 ```toml
 [pr_code_suggestions]
@@ -168,21 +313,56 @@ code_suggestions_self_review_text = "... (your text here) ..."
 
         To prevent unauthorized approvals, this configuration defaults to false, and cannot be altered through online comments; enabling requires a direct update to the configuration file and a commit to the repository. This ensures that utilizing the feature demands a deliberate documented decision by the repository owner.
 
+### Auto-approval
+> `💎 feature. Platforms supported: GitHub, GitLab, Bitbucket`
+
+Under specific conditions, Qodo Merge can auto-approve a PR when a specific comment is invoked, or when the PR meets certain criteria.
+
+To ensure safety, the auto-approval feature is disabled by default. To enable auto-approval, you need to actively set, in a pre-defined _configuration file_, the following:
+```toml
+[config]
+enable_auto_approval = true
+```
+Note that this specific flag cannot be set with a command line argument, only in the configuration file, committed to the repository.
+This ensures that enabling auto-approval is a deliberate decision by the repository owner.
+
+**(1) Auto-approval by commenting**
+
+After enabling, by commenting on a PR:
+```
+/review auto_approve
+```
+Qodo Merge will automatically approve the PR, and add a comment with the approval.
+
+**(2) Auto-approval when the PR meets certain criteria**
+
+There are two criteria that can be set for auto-approval:
+
+- **Review effort score**
+```toml
+[config]
+auto_approve_for_low_review_effort = X # X is a number between 1 to 5
+```
+When the [review effort score](https://www.qodo.ai/images/pr_agent/review3.png) is lower or equal to X, the PR will be auto-approved.
+
+___
+- **No code suggestions**
+```toml
+[config]
+auto_approve_for_no_suggestions = true
+```
+When no [code suggestion](https://www.qodo.ai/images/pr_agent/code_suggestions_as_comment_closed.png) were found for the PR, the PR will be auto-approved.
 
 ### How many code suggestions are generated?
 Qodo Merge uses a dynamic strategy to generate code suggestions based on the size of the pull request (PR). Here's how it works:
 
-1) Chunking large PRs:
+#### 1. Chunking large PRs
-
 - Qodo Merge divides large PRs into 'chunks'.
 - Each chunk contains up to `pr_code_suggestions.max_context_tokens` tokens (default: 14,000).
 
-
+#### 2. Generating suggestions
-2) Generating suggestions:
-
 - For each chunk, Qodo Merge generates up to `pr_code_suggestions.num_code_suggestions_per_chunk` suggestions (default: 4).
 
-
 This approach has two main benefits:
 
 - Scalability: The number of suggestions scales with the PR size, rather than being fixed.
@@ -191,73 +371,6 @@ This approach has two main benefits:
 Note: Chunking is primarily relevant for large PRs. For most PRs (up to 500 lines of code), Qodo Merge will be able to process the entire code in a single call.
 
 
-### 'Extra instructions' and 'best practices'
-
-#### Extra instructions
-
->`Platforms supported: GitHub, GitLab, Bitbucket`
-
-You can use the `extra_instructions` configuration option to give the AI model additional instructions for the `improve` tool.
-Be specific, clear, and concise in the instructions. With extra instructions, you are the prompter. Specify relevant aspects that you want the model to focus on.
-    
-Examples for possible instructions:
-```toml
-[pr_code_suggestions]
-extra_instructions="""\
-(1) Answer in japanese
-(2) Don't suggest to add try-excpet block
-(3) Ignore changes in toml files
-...
-"""
-```
-Use triple quotes to write multi-line instructions. Use bullet points or numbers to make the instructions more readable.
-
-#### Best practices 💎
-
->`Platforms supported: GitHub, GitLab`
-
-Another option to give additional guidance to the AI model is by creating a dedicated [**wiki page**](https://github.com/Codium-ai/pr-agent/wiki) called `best_practices.md`. 
-This page can contain a list of best practices, coding standards, and guidelines that are specific to your repo/organization.
-
-The AI model will use this wiki page as a reference, and in case the PR code violates any of the guidelines, it will suggest improvements accordingly, with a dedicated label: `Organization
-best practice`. 
-
-Example for a `best_practices.md` content can be found [here](https://github.com/Codium-ai/pr-agent/blob/main/docs/docs/usage-guide/EXAMPLE_BEST_PRACTICE.md) (adapted from Google's [pyguide](https://google.github.io/styleguide/pyguide.html)).
-This file is only an example. Since it is used as a prompt for an AI model, we want to emphasize the following:
-
-- It should be written in a clear and concise manner
-- If needed, it should give short relevant code snippets as examples
-- Recommended to limit the text to 800 lines or fewer. Here’s why:
-
-     1) Extremely long best practices documents may not be fully processed by the AI model.
-  
-     2) A lengthy file probably represent a more "**generic**" set of guidelines, which the AI model is already familiar with. The objective is to focus on a more targeted set of guidelines tailored to the specific needs of this project.
-
-##### Local and global best practices
-By default, Qodo Merge will look for a local `best_practices.md` wiki file in the root of the relevant local repo.
-
-If you want to enable also a global `best_practices.md` wiki file, set first in the global configuration file:
-
-```toml
-[best_practices]
-enable_global_best_practices = true
-```
-
-Then, create a `best_practices.md` wiki file in the root of [global](https://qodo-merge-docs.qodo.ai/usage-guide/configuration_options/#global-configuration-file) configuration repository,  `pr-agent-settings`.
-
-##### Example results
-
-![best_practice](https://codium.ai/images/pr_agent/org_best_practice.png){width=512}
-
-
-#### How to combine `extra instructions` and `best practices`
-
-The `extra instructions` configuration is more related to the `improve` tool prompt. It can be used, for example, to avoid specific suggestions ("Don't suggest to add try-except block", "Ignore changes in toml files", ...) or to emphasize specific aspects or formats ("Answer in Japanese", "Give only short suggestions", ...)
-
-In contrast, the `best_practices.md` file is a general guideline for the way code should be written in the repo.
-
-Using a combination of both can help the AI model to provide relevant and tailored suggestions.
-
 ## Configuration options
 
 ??? example "General options"
@@ -276,12 +389,12 @@ Using a combination of both can help the AI model to provide relevant and tailor
         <td>Minimum score threshold for suggestions to be presented as commitable PR comments in addition to the table. Default is -1 (disabled).</td>
       </tr>
       <tr>
-        <td><b>persistent_comment</b></td>
+        <td><b>focus_only_on_problems</b></td>
-        <td>If set to true, the improve comment will be persistent, meaning that every new improve request will edit the previous one. Default is false.</td>
+        <td>If set to true, suggestions will focus primarily on identifying and fixing code problems, and less on style considerations like best practices, maintainability, or readability. Default is true.</td> 
       </tr>
       <tr>
-        <td><b>self_reflect_on_suggestions</b></td>
+        <td><b>persistent_comment</b></td>
-        <td>If set to true, the improve tool will calculate an importance score for each suggestion [1-10], and sort the suggestion labels group based on this score. Default is true.</td>
+        <td>If set to true, the improve comment will be persistent, meaning that every new improve request will edit the previous one. Default is false.</td>
       </tr>
       <tr>
         <td><b>suggestions_score_threshold</b></td>
@@ -291,6 +404,10 @@ Using a combination of both can help the AI model to provide relevant and tailor
         <td><b>apply_suggestions_checkbox</b></td>
         <td> Enable the checkbox to create a committable suggestion. Default is true.</td>
       </tr>
+      <tr>
+        <td><b>enable_more_suggestions_checkbox</b></td>
+        <td> Enable the checkbox to generate more suggestions. Default is true.</td>
+      </tr>
       <tr>
         <td><b>enable_help_text</b></td>
         <td>If set to true, the tool will display a help text in the comment. Default is true.</td>
@@ -303,6 +420,10 @@ Using a combination of both can help the AI model to provide relevant and tailor
         <td><b>wiki_page_accepted_suggestions</b></td>
         <td>If set to true, the tool will automatically track accepted suggestions in a dedicated wiki page called `.pr_agent_accepted_suggestions`. Default is true.</td>
       </tr>
+      <tr>
+        <td><b>allow_thumbs_up_down</b></td>
+        <td>If set to true, all code suggestions will have thumbs up and thumbs down buttons, to encourage users to provide feedback on the suggestions. Default is false.</td>
+      </tr>
     </table>
 
 ??? example "Params for number of suggestions and AI calls"
@@ -320,10 +441,6 @@ Using a combination of both can help the AI model to provide relevant and tailor
         <td><b>max_number_of_calls</b></td>
         <td>Maximum number of chunks. Default is 3.</td>
       </tr>
-      <tr>
-        <td><b>rank_extended_suggestions</b></td>
-        <td>If set to true, the tool will rank the suggestions, based on importance. Default is true.</td>
-      </tr>
     </table>
 
 ## A note on code suggestions quality

docs/docs/tools/improve_component.md

@@ -18,9 +18,9 @@ The tool will generate code suggestions for the selected component (if no compon
 
 ![improve_component2](https://codium.ai/images/pr_agent/improve_component2.png){width=768}
 
-**Notes**
+!!! note "Notes"
-- Language that are currently supported by the tool: Python, Java, C++, JavaScript, TypeScript, C#.
+    - Language that are currently supported by the tool: Python, Java, C++, JavaScript, TypeScript, C#.
-- This tool can also be triggered interactively by using the [`analyze`](./analyze.md) tool.
+    - This tool can also be triggered interactively by using the [`analyze`](./analyze.md) tool.
 
 ## Configuration options
 - `num_code_suggestions`: number of code suggestions to provide. Default is 4

docs/docs/tools/index.md

@@ -3,7 +3,7 @@
 Here is a list of Qodo Merge tools, each with a dedicated page that explains how to use it:
 
 | Tool                                                                                     | Description                                                                                                                                |
-|------------------------------------------------------------------------------------------|---------------------------------------------------------------------------------------------------------------------------------------------|
+|------------------------------------------------------------------------------------------|--------------------------------------------------------------------------------------------------------------------------------------------|
 | **[PR Description (`/describe`](./describe.md))**                                        | Automatically generating PR description - title, type, summary, code walkthrough and labels                                                |
 | **[PR Review (`/review`](./review.md))**                                                 | Adjustable feedback about the PR, possible issues, security concerns, review effort and more                                               |
 | **[Code Suggestions (`/improve`](./improve.md))**                                        | Code suggestions for improving the PR                                                                                                      |
@@ -13,10 +13,11 @@ Here is a list of Qodo Merge tools, each with a dedicated page that explains how
 | **[Help (`/help`](./help.md))**                                                          | Provides a list of all the available tools. Also enables to trigger them interactively (💎)                                                |
 | **💎 [Add Documentation (`/add_docs`](./documentation.md))**                             | Generates documentation to methods/functions/classes that changed in the PR                                                                |
 | **💎 [Generate Custom Labels (`/generate_labels`](./custom_labels.md))**                 | Generates custom labels for the PR, based on specific guidelines defined by the user                                                       |
-| **💎 [Analyze (`/analyze`](./analyze.md))**                                              | Identify code components that changed in the PR, and enables to interactively generate tests, docs, and code suggestions for each component |
+| **💎 [Analyze (`/analyze`](./analyze.md))**                                              | Identify code components that changed in the PR, and enables to interactively generate tests, docs, and code suggestions for each component|
+| **💎 [Test (`/test`](./test.md))**                                                       | generate tests for a selected component, based on the PR code changes                                                                      |
 | **💎 [Custom Prompt (`/custom_prompt`](./custom_prompt.md))**                            | Automatically generates custom suggestions for improving the PR code, based on specific guidelines defined by the user                     |
 | **💎 [Generate Tests (`/test component_name`](./test.md))**                              | Automatically generates unit tests for a selected component, based on the PR code changes                                                  |
 | **💎 [Improve Component (`/improve_component component_name`](./improve_component.md))** | Generates code suggestions for a specific code component that changed in the PR                                                            |
 | **💎 [CI Feedback (`/checks ci_job`](./ci_feedback.md))**                                | Automatically generates feedback and analysis for a failed CI job                                                                          |
-
+| **💎 [Implement (`/implement`](./implement.md))**                                        | Generates implementation code from review suggestions                                                                                      |
-Note that the tools marked with 💎 are available only for Qodo Merge Pro users.
+Note that the tools marked with 💎 are available only for Qodo Merge users.

docs/docs/tools/review.md

@@ -39,72 +39,27 @@ pr_commands = [
 ]
 
 [pr_reviewer]
-num_code_suggestions = ...
+extra_instructions = "..."
 ...
 ```
 
 - The `pr_commands` lists commands that will be executed automatically when a PR is opened.
 - The `[pr_reviewer]` section contains the configurations for the `review` tool you want to edit (if any).
 
-[//]: # ()
-[//]: # (### Incremental Mode)
-
-[//]: # (Incremental review only considers changes since the last Qodo Merge review. This can be useful when working on the PR in an iterative manner, and you want to focus on the changes since the last review instead of reviewing the entire PR again.)
-
-[//]: # (For invoking the incremental mode, the following command can be used:)
-
-[//]: # (```)
-
-[//]: # (/review -i)
-
-[//]: # (```)
-
-[//]: # (Note that the incremental mode is only available for GitHub.)
-
-[//]: # ()
-[//]: # (![incremental review](https://codium.ai/images/pr_agent/incremental_review_2.png){width=512})
-
-[//]: # (### PR Reflection)
-
-[//]: # ()
-[//]: # (By invoking:)
-
-[//]: # (```)
-
-[//]: # (/reflect_and_review)
-
-[//]: # (```)
-
-[//]: # (The tool will first ask the author questions about the PR, and will guide the review based on their answers.)
-
-[//]: # ()
-[//]: # (![reflection questions](https://codium.ai/images/pr_agent/reflection_questions.png){width=512})
-
-[//]: # ()
-[//]: # (![reflection answers](https://codium.ai/images/pr_agent/reflection_answers.png){width=512})
-
-[//]: # ()
-[//]: # (![reflection insights](https://codium.ai/images/pr_agent/reflection_insights.png){width=512})
-
-
 
 ## Configuration options
 
 !!! example "General options"
 
 <table>
-  <tr>
-    <td><b>num_code_suggestions</b></td>
-    <td>Number of code suggestions provided by the 'review' tool. Default is 0, meaning no code suggestions will be provided by the `review` tool.</td>
-  </tr>
-  <tr>
-    <td><b>inline_code_comments</b></td>
-    <td>If set to true, the tool will publish the code suggestions as comments on the code diff. Default is false. Note that you need to set `num_code_suggestions`>0 to get code suggestions </td>
-  </tr>
   <tr>
     <td><b>persistent_comment</b></td>
     <td>If set to true, the review comment will be persistent, meaning that every new review request will edit the previous one. Default is true.</td>
   </tr>
+  <tr>
+  <td><b>final_update_message</b></td>
+  <td>When set to true, updating a persistent review comment during online commenting will automatically add a short comment with a link to the updated review in the pull request .Default is true.</td>
+  </tr>
   <tr>
     <td><b>extra_instructions</b></td>
     <td>Optional extra instructions to the tool. For example: "focus on the changes in the file X. Ignore change in ...".</td>
@@ -140,7 +95,7 @@ num_code_suggestions = ...
   </tr>
   <tr>
     <td><b>require_ticket_analysis_review</b></td>
-    <td>If set to true, and the PR contains a GitHub ticket number, the tool will add a section that checks if the PR in fact fulfilled the ticket requirements. Default is true.</td>
+    <td>If set to true, and the PR contains a GitHub or Jira ticket link, the tool will add a section that checks if the PR in fact fulfilled the ticket requirements. Default is true.</td>
   </tr>
 </table>
 
@@ -159,20 +114,6 @@ You can enable\disable the `review` tool to add specific labels to the PR:
   </tr>
 </table>
 
-!!! example "Auto-approval"
-
-If enabled, the `review` tool can approve a PR when a specific comment, `/review auto_approve`, is invoked.
-
-<table>
-  <tr>
-    <td><b>enable_auto_approval</b></td>
-    <td>If set to true, the tool will approve the PR when invoked with the 'auto_approve' command. Default is false. This flag can be changed only from a configuration file.</td>
-  </tr>
-  <tr>
-    <td><b>maximal_review_effort</b></td>
-    <td>Maximal effort level for auto-approval. If the PR's estimated review effort is above this threshold, the auto-approval will not run. Default is 5.</td>
-  </tr>
-</table>
 
 ## Usage Tips
 
@@ -189,9 +130,9 @@ If enabled, the `review` tool can approve a PR when a specific comment, `/review
 !!! tip "Automation"
     When you first install Qodo Merge app, the [default mode](../usage-guide/automations_and_usage.md#github-app-automatic-tools-when-a-new-pr-is-opened) for the `review` tool is:
     ```
-    pr_commands = ["/review --pr_reviewer.num_code_suggestions=0", ...]
+    pr_commands = ["/review", ...]
     ```
-    Meaning the `review` tool will run automatically on every PR, without providing code suggestions.
+    Meaning the `review` tool will run automatically on every PR, without any additional configurations.
     Edit this field to enable/disable the tool, or to change the configurations used.
 
 !!! tip "Possible labels from the review tool"
@@ -224,38 +165,10 @@ If enabled, the `review` tool can approve a PR when a specific comment, `/review
     Use triple quotes to write multi-line instructions. Use bullet points to make the instructions more readable.
 
 
-!!! tip "Auto-approval"
-
-    Qodo Merge can approve a PR when a specific comment is invoked.
-    
-    To ensure safety, the auto-approval feature is disabled by default. To enable auto-approval, you need to actively set in a pre-defined configuration file the following:
-    ```
-    [pr_reviewer]
-    enable_auto_approval = true
-    ```
-    (this specific flag cannot be set with a command line argument, only in the configuration file, committed to the repository)
 
 
-    After enabling, by commenting on a PR:
+!!! tip  "Code suggestions"
-    ```
+
-    /review auto_approve
+    The `review` tool previously included a legacy feature for providing code suggestions (controlled by `--pr_reviewer.num_code_suggestion`). This functionality has been deprecated and replaced by the [`improve`](./improve.md) tool, which offers higher quality and more actionable code suggestions.
-    ```
-    Qodo Merge will automatically approve the PR, and add a comment with the approval.
 
     
-    You can also enable auto-approval only if the PR meets certain requirements, such as that the `estimated_review_effort` label is equal or below a certain threshold, by adjusting the flag:
-    ```
-    [pr_reviewer]
-    maximal_review_effort = 5
-    ```
-
-[//]: # (!!! tip  "Code suggestions")
-
-[//]: # ()
-[//]: # (    If you set `num_code_suggestions`>0 , the `review` tool will also provide code suggestions.)
-
-[//]: # (    )
-[//]: # (    Notice If you are interested **only** in the code suggestions, it is recommended to use the [`improve`]&#40;./improve.md&#41; feature instead, since it is a dedicated only to code suggestions, and usually gives better results.)
-
-[//]: # (    Use the `review` tool if you want to get more comprehensive feedback, which includes code suggestions as well.)
-

docs/docs/tools/similar_code.md

@@ -49,9 +49,10 @@ It can be invoked automatically from the analyze table, can be accessed by:
 /analyze
 ```
 Choose the components you want to find similar code for, and click on the `similar` checkbox.
+
 ![analyze similar](https://codium.ai/images/pr_agent/analyze_similar.png){width=768}
 
-If you are looking to search for similar code in the organization's codebase, you can click on the `Organization` checkbox, and it will invoke a new search command just for the organization's codebase. 
+You can search for similar code either within the organization's codebase or globally, which includes open-source repositories. Each result will include the relevant code components along with their associated license details.
 
 ![similar code global](https://codium.ai/images/pr_agent/similar_code_global.png){width=768}
 

docs/docs/tools/similar_issues.md

@@ -16,14 +16,17 @@ It can be invoked manually by commenting on any PR:
 
 Note that to perform retrieval, the `similar_issue` tool indexes all the repo previous issues (once).
 
+### Selecting a Vector Database
+Configure your preferred database by changing the `pr_similar_issue` parameter in `configuration.toml` file.
 
-**Select VectorDBs** by changing `pr_similar_issue` parameter in `configuration.toml` file 
+#### Available Options
+Choose from the following Vector Databases:
 
-2 VectorDBs are available to switch in
 1. LanceDB
 2. Pinecone
 
-To enable usage of the '**similar issue**' tool for Pinecone, you need to set the following keys in `.secrets.toml` (or in the relevant environment variables):
+#### Pinecone Configuration
+To use Pinecone with the `similar issue` tool, add these credentials to `.secrets.toml` (or set as environment variables):
 
 ```
 [pinecone]

docs/docs/tools/test.md

@@ -17,9 +17,9 @@ The tool will generate tests for the selected component (if no component is stat
 
 (Example taken from [here](https://github.com/Codium-ai/pr-agent/pull/598#issuecomment-1913679429)):
 
-**Notes**
+!!! note "Notes"
-- Language that are currently supported by the tool: Python, Java, C++, JavaScript, TypeScript, C#.
+    - The following languages are currently supported: Python, Java, C++, JavaScript, TypeScript, C#.
-- This tool can also be triggered interactively by using the [`analyze`](./analyze.md) tool.
+    - This tool can also be triggered interactively by using the [`analyze`](./analyze.md) tool.
 
 
 ## Configuration options

docs/docs/tools/update_changelog.md

@@ -17,3 +17,4 @@ Under the section `pr_update_changelog`, the [configuration file](https://github
 
 - `push_changelog_changes`: whether to push the changes to CHANGELOG.md, or just print them. Default is false (print only).
 - `extra_instructions`: Optional extra instructions to the tool. For example: "focus on the changes in the file X. Ignore change in ...
+- `add_pr_link`: whether the model should try to add a link to the PR in the changelog. Default is true.

docs/docs/usage-guide/PR_agent_pro_models.md

@@ -1,18 +0,0 @@
-## Qodo Merge Pro Models
-
-The default models used by Qodo Merge Pro are a combination of Claude-3.5-sonnet and  OpenAI's GPT-4 models.
-
-Users can configure Qodo Merge Pro to use solely a specific model by editing the [configuration](https://qodo-merge-docs.qodo.ai/usage-guide/configuration_options/) file.
-
-For example, to restrict Qodo Merge Pro to using only `Claude-3.5-sonnet`, add this setting:
-
-```
-[config]
-model="claude-3-5-sonnet"
-```
-
-Or to restrict Qodo Merge Pro to using only `GPT-4o`, add this setting:
-```
-[config]
-model="gpt-4o"
-```

docs/docs/usage-guide/additional_configurations.md

@@ -1,5 +1,5 @@
 ## Show possible configurations
-The possible configurations of Qodo Merge are stored in [here](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/settings/configuration.toml).
+The possible configurations of Qodo Merge are stored in [here](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/settings/configuration.toml){:target="_blank"}.
 In the [tools](https://qodo-merge-docs.qodo.ai/tools/) page you can find explanations on how to use these configurations for each tool.
 
 To print all the available configurations as a comment on your PR, you can use the following command:
@@ -57,6 +57,23 @@ All Qodo Merge tools have a parameter called `extra_instructions`, that enables
 /update_changelog --pr_update_changelog.extra_instructions="Make sure to update also the version ..."
 ```
 
+## Language Settings
+
+The default response language for Qodo Merge is **U.S. English**. However, some development teams may prefer to display information in a different language. For example, your team's workflow might improve if PR descriptions and code suggestions are set to your country's native language.  
+
+To configure this, set the `response_language` parameter in the configuration file. This will prompt the model to respond in the specified language. Use a **standard locale code** based on [ISO 3166](https://en.wikipedia.org/wiki/ISO_3166) (country codes) and [ISO 639](https://en.wikipedia.org/wiki/ISO_639) (language codes) to define a language-country pair. See this [comprehensive list of locale codes](https://simplelocalize.io/data/locales/).  
+
+Example: 
+
+```toml
+[config]
+response_language: "it-IT"
+```
+
+This will set the response language globally for all the commands to Italian.
+
+> **Important:** Note that only dynamic text generated by the AI model is translated to the configured language. Static text such as labels and table headers that are not part of the AI models response will remain in US English. In addition, the model you are using must have good support for the specified language. 
+
 ## Working with large PRs
 
 The default mode of CodiumAI is to have a single call per tool, using GPT-4, which has a token limit of 8000 tokens.
@@ -138,7 +155,15 @@ LANGSMITH_BASE_URL=<url>
 
 ## Ignoring automatic commands in PRs
 
-In some cases, you may want to automatically ignore specific PRs . Qodo Merge enables you to ignore PR with a specific title, or from/to specific branches (regex matching).
+Qodo Merge allows you to automatically ignore certain PRs based on various criteria:
+
+- PRs with specific titles (using regex matching)
+- PRs between specific branches (using regex matching)
+- PRs not from specific folders
+- PRs containing specific labels
+- PRs opened by specific users
+
+### Ignoring PRs with specific titles
 
 To ignore PRs with a specific title such as "[Bump]: ...", you can add the following to your `configuration.toml` file:
 
@@ -149,6 +174,7 @@ ignore_pr_title = ["\\[Bump\\]"]
 
 Where the `ignore_pr_title` is a list of regex patterns to match the PR title you want to ignore. Default is `ignore_pr_title = ["^\\[Auto\\]", "^Auto"]`.
 
+### Ignoring PRs between specific branches
 
 To ignore PRs from specific source or target branches, you can add the following to your `configuration.toml` file:
 
@@ -160,3 +186,46 @@ ignore_pr_target_branches = ["qa"]
 
 Where the `ignore_pr_source_branches` and `ignore_pr_target_branches` are lists of regex patterns to match the source and target branches you want to ignore.
 They are not mutually exclusive, you can use them together or separately.
+
+### Ignoring PRs not from specific folders
+
+To allow only specific folders (often needed in large monorepos), set:
+
+```
+[config]
+allow_only_specific_folders=['folder1','folder2']
+```
+
+For the configuration above, automatic feedback will only be triggered when the PR changes include files where 'folder1' or 'folder2' is in the file path
+
+### Ignoring PRs containing specific labels
+
+To ignore PRs containg specific labels, you can add the following to your `configuration.toml` file:
+
+``` 
+[config]
+ignore_pr_labels = ["do-not-merge"]
+```
+
+Where the `ignore_pr_labels` is a list of labels that when present in the PR, the PR will be ignored.
+
+### Ignoring PRs from specific users
+
+Qodo Merge automatically identifies and ignores pull requests created by bots using:
+
+- GitHub's native bot detection system
+- Name-based pattern matching
+
+While this detection is robust, it may not catch all cases, particularly when:
+
+- Bots are registered as regular user accounts
+- Bot names don't match common patterns
+
+To supplement the automatic bot detection, you can manually specify users to ignore. Add the following to your `configuration.toml` file to ignore PRs from specific users:
+```
+[config]
+ignore_pr_authors = ["my-special-bot-user", ...]
+```
+
+Where the `ignore_pr_authors` is a list of usernames that you want to ignore.
+

docs/docs/usage-guide/automations_and_usage.md

@@ -1,4 +1,5 @@
 ## Local repo (CLI)
+
 When running from your locally cloned Qodo Merge repo (CLI), your local configuration file will be used.
 Examples of invoking the different tools via the CLI:
 
@@ -13,12 +14,12 @@ Examples of invoking the different tools via the CLI:
 
 **Notes:**
 
-(1) in addition to editing your local configuration file, you can also change any configuration value by adding it to the command line:
+1. in addition to editing your local configuration file, you can also change any configuration value by adding it to the command line:
 ```
 python -m pr_agent.cli --pr_url=<pr_url>  /review --pr_reviewer.extra_instructions="focus on the file: ..."
 ```
 
-(2) You can print results locally, without publishing them, by setting in `configuration.toml`:
+2. You can print results locally, without publishing them, by setting in `configuration.toml`:
 ```
 [config]
 publish_output=false
@@ -26,18 +27,33 @@ verbosity_level=2
 ```
 This is useful for debugging or experimenting with different tools.
 
-(3)
+3. **git provider**: The [git_provider](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/settings/configuration.toml#L5) field in a configuration file determines the GIT provider that will be used by Qodo Merge. Currently, the following providers are supported:
-
+`github` **(default)**, `gitlab`, `bitbucket`, `azure`, `codecommit`, `local`, and `gerrit`.
-**git provider**: The [git_provider](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/settings/configuration.toml#L5) field in a configuration file determines the GIT provider that will be used by Qodo Merge. Currently, the following providers are supported:
-`
-"github", "gitlab", "bitbucket", "azure", "codecommit", "local", "gerrit"
-`
-
-Default is "github".
 
 
+### CLI Health Check
+To verify that Qodo Merge has been configured correctly, you can run this health check command from the repository root:
 
-### Online usage
+```bash
+python -m tests.health_test.main
+```
+
+If the health check passes, you will see the following output:
+
+```
+========
+Health test passed successfully
+========
+```
+
+At the end of the run.
+
+Before running the health check, ensure you have:
+
+- Configured your [LLM provider](https://qodo-merge-docs.qodo.ai/usage-guide/changing_a_model/)
+- Added a valid GitHub token to your configuration file
+
+## Online usage
 
 Online usage means invoking Qodo Merge tools by [comments](https://github.com/Codium-ai/pr-agent/pull/229#issuecomment-1695021901) on a PR.
 Commands for invoking the different tools via comments:
@@ -58,59 +74,80 @@ For example, if you want to edit the `review` tool configurations, you can run:
 Any configuration value in [configuration file](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/settings/configuration.toml) file can be similarly edited. Comment `/config` to see the list of available configurations.
 
 
-## GitHub App
+## Qodo Merge Automatic Feedback
 
-!!! note "Configurations for Qodo Merge Pro"
+
-    Qodo Merge Pro for GitHub is an App, hosted by CodiumAI. So all the instructions below are relevant also for Qodo Merge Pro users.
+### Disabling all automatic feedback
+
+To easily disable all automatic feedback from Qodo Merge (GitHub App, GitLab Webhook, BitBucket App, Azure DevOps Webhook), set in a configuration file:
+
+```toml
+[config]
+disable_auto_feedback = true
+```
+
+When this parameter is set to `true`, Qodo Merge will not run any automatic tools (like `describe`, `review`, `improve`) when a new PR is opened, or when new code is pushed to an open PR.
+
+### GitHub App
+
+!!! note "Configurations for Qodo Merge"
+    Qodo Merge for GitHub is an App, hosted by Qodo. So all the instructions below are relevant also for Qodo Merge users.
     Same goes for [GitLab webhook](#gitlab-webhook) and [BitBucket App](#bitbucket-app) sections.
 
-### GitHub app automatic tools when a new PR is opened
+#### GitHub app automatic tools when a new PR is opened
 
-The [github_app](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/settings/configuration.toml#L108) section defines GitHub app specific configurations.  
+The [github_app](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/settings/configuration.toml#L220) section defines GitHub app specific configurations.
 
-The configuration parameter `pr_commands` defines the list of tools that will be **run automatically** when a new PR is opened.
+The configuration parameter `pr_commands` defines the list of tools that will be **run automatically** when a new PR is opened:
-```
+```toml
 [github_app]
 pr_commands = [
-    "/describe --pr_description.final_update_message=false",
+    "/describe",
-    "/review --pr_reviewer.num_code_suggestions=0",
+    "/review",
     "/improve",
 ]
 ```
+
 This means that when a new PR is opened/reopened or marked as ready for review, Qodo Merge will run the `describe`, `review` and `improve` tools.  
-For the `review` tool, for example, the `num_code_suggestions` parameter will be set to 0.
 
 You can override the default tool parameters by using one the three options for a [configuration file](https://qodo-merge-docs.qodo.ai/usage-guide/configuration_options/): **wiki**, **local**, or **global**.
-For example, if your local `.pr_agent.toml` file contains:
+For example, if your configuration file contains:
-```
+
+```toml
 [pr_description]
 generate_ai_title = true
 ```
-Every time you run the `describe` tool, including automatic runs, the PR title will be generated by the AI.
 
-To cancel the automatic run of all the tools, set:
+Every time you run the `describe` tool (including automatic runs) the PR title will be generated by the AI.
-```
+
+You can customize configurations specifically for automated runs by using the `--config_path=<value>` parameter.
+For instance, to modify the `review` tool settings only for newly opened PRs, use:
+```toml
 [github_app]
-pr_commands = []
+pr_commands = [
+    "/describe",
+    "/review --pr_reviewer.extra_instructions='focus on the file: ...'",
+    "/improve",
+]
 ```
 
-### GitHub app automatic tools for push actions (commits to an open PR)
+#### GitHub app automatic tools for push actions (commits to an open PR)
 
 In addition to running automatic tools when a PR is opened, the GitHub app can also respond to new code that is pushed to an open PR.
 
 The configuration toggle `handle_push_trigger` can be used to enable this feature.
 The configuration parameter `push_commands` defines the list of tools that will be **run automatically** when new code is pushed to the PR.
-```
+```toml
 [github_app]
 handle_push_trigger = true
 push_commands = [
     "/describe",
-    "/review  --pr_reviewer.num_code_suggestions=0 --pr_reviewer.final_update_message=false",
+    "/review",
 ]
 ```
 This means that when new code is pushed to the PR, the Qodo Merge will run the `describe` and `review` tools, with the specified parameters.
 
-## GitHub Action
+### GitHub Action
 `GitHub Action` is a different way to trigger Qodo Merge tools, and uses a different configuration mechanism than `GitHub App`.<br>
 You can configure settings for `GitHub Action` by adding environment variables under the env section in `.github/workflows/pr_agent.yml` file.
 Specifically, start by setting the following environment variables:
@@ -121,7 +158,7 @@ Specifically, start by setting the following environment variables:
         github_action_config.auto_review: "true" # enable\disable auto review
         github_action_config.auto_describe: "true" # enable\disable auto describe
         github_action_config.auto_improve: "true" # enable\disable auto improve
-        github_action_config.pr_actions: ["opened", "reopened", "ready_for_review", "review_requested"]
+        github_action_config.pr_actions: '["opened", "reopened", "ready_for_review", "review_requested"]'
 ```
 `github_action_config.auto_review`, `github_action_config.auto_describe` and `github_action_config.auto_improve` are used to enable/disable automatic tools that run when a new PR is opened.
 If not set, the default configuration is for all three tools to run automatically when a new PR is opened.
@@ -136,19 +173,22 @@ The JSON structure is equivalent to the yaml data structure defined in [pr_revie
 Note that you can give additional config parameters by adding environment variables to `.github/workflows/pr_agent.yml`, or by using a `.pr_agent.toml` [configuration file](https://qodo-merge-docs.qodo.ai/usage-guide/configuration_options/#global-configuration-file) in the root of your repo
 
 For example, you can set an environment variable: `pr_description.publish_labels=false`, or add a `.pr_agent.toml` file with the following content:
-```
+
+```toml
 [pr_description]
 publish_labels = false
 ```
+
 to prevent Qodo Merge from publishing labels when running the `describe` tool.
 
-## GitLab Webhook
+### GitLab Webhook
 After setting up a GitLab webhook, to control which commands will run automatically when a new MR is opened, you can set the `pr_commands` parameter in the configuration file, similar to the GitHub App:
-```
+
+```toml
 [gitlab]
 pr_commands = [
     "/describe",
-    "/review --pr_reviewer.num_code_suggestions=0",
+    "/review",
     "/improve",
 ]
 ```
@@ -156,24 +196,24 @@ pr_commands = [
 the GitLab webhook can also respond to new code that is pushed to an open MR.
 The configuration toggle `handle_push_trigger` can be used to enable this feature.
 The configuration parameter `push_commands` defines the list of tools that will be **run automatically** when new code is pushed to the MR.
-```
+```toml
 [gitlab]
 handle_push_trigger = true
 push_commands = [
     "/describe",
-    "/review  --pr_reviewer.num_code_suggestions=0 --pr_reviewer.final_update_message=false",
+    "/review",
 ]
 ```
 
 Note that to use the 'handle_push_trigger' feature, you need to give the gitlab webhook also the "Push events" scope.
 
-## BitBucket App
+### BitBucket App
 Similar to GitHub app, when running Qodo Merge from BitBucket App, the default [configuration file](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/settings/configuration.toml) from a pre-built docker will be initially loaded.
 
 By uploading a local `.pr_agent.toml` file to the root of the repo's main branch, you can edit and customize any configuration parameter. Note that you need to upload `.pr_agent.toml` prior to creating a PR, in order for the configuration to take effect.
 
 For example, if your local `.pr_agent.toml` file contains:
-```
+```toml
 [pr_reviewer]
 extra_instructions = "Answer in japanese"
 ```
@@ -182,29 +222,39 @@ Each time you invoke a `/review` tool, it will use the extra instructions you se
 
 
 Note that among other limitations, BitBucket provides relatively low rate-limits for applications (up to 1000 requests per hour), and does not provide an API to track the actual rate-limit usage.
-If you experience lack of responses from Qodo Merge, you might want to set: `bitbucket_app.avoid_full_files=true` in your configuration file.
+If you experience a lack of responses from Qodo Merge, you might want to set: `bitbucket_app.avoid_full_files=true` in your configuration file.
 This will prevent Qodo Merge from acquiring the full file content, and will only use the diff content. This will reduce the number of requests made to BitBucket, at the cost of small decrease in accuracy, as dynamic context will not be applicable.
 
 
-### BitBucket Self-Hosted App automatic tools
+#### BitBucket Self-Hosted App automatic tools
 
 To control which commands will run automatically when a new PR is opened, you can set the `pr_commands` parameter in the configuration file:
 Specifically, set the following values:
 
-```
+```toml
 [bitbucket_app]
 pr_commands = [
-    "/review --pr_reviewer.num_code_suggestions=0",
+    "/review",
     "/improve --pr_code_suggestions.commitable_code_suggestions=true --pr_code_suggestions.suggestions_score_threshold=7",
 ]
 ```
 Note that we set specifically for bitbucket, we recommend using: `--pr_code_suggestions.suggestions_score_threshold=7` and that is the default value we set for bitbucket.
 Since this platform only supports inline code suggestions, we want to limit the number of suggestions, and only present a limited number.
 
-## Azure DevOps provider
+To enable BitBucket app to respond to each **push** to the PR, set (for example):
+```toml
+[bitbucket_app]
+handle_push_trigger = true
+push_commands = [
+    "/describe",
+    "/review",
+]
+```
+
+### Azure DevOps provider
 
 To use Azure DevOps provider use the following settings in configuration.toml:
-```
+```toml
 [config]
 git_provider="azure"
 ```
@@ -223,14 +273,14 @@ org = "https://dev.azure.com/YOUR_ORGANIZATION/"
 # pat = "YOUR_PAT_TOKEN" needed only if using PAT for authentication
 ```
 
-### Azure DevOps Webhook
+#### Azure DevOps Webhook
 
 To control which commands will run automatically when a new PR is opened, you can set the `pr_commands` parameter in the configuration file, similar to the GitHub App:
-```
+```toml
 [azure_devops_server]
 pr_commands = [
     "/describe",
-    "/review --pr_reviewer.num_code_suggestions=0",
+    "/review",
     "/improve",
 ]
 ```

docs/docs/usage-guide/changing_a_model.md

@@ -1,11 +1,10 @@
-## Changing a model
+## Changing a model in PR-Agent
 
 See [here](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/algo/__init__.py) for a list of available models.
 To use a different model than the default (GPT-4), you need to edit in the [configuration file](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/settings/configuration.toml#L2) the fields:
 ```
 [config]
 model = "..."
-model_turbo = "..."
 fallback_models = ["..."]
 ```
 
@@ -27,57 +26,51 @@ deployment_id = ""  # The deployment name you chose when you deployed the engine
 and set in your configuration file:
 ```
 [config]
-model="" # the OpenAI model you've deployed on Azure (e.g. gpt-3.5-turbo)
+model="" # the OpenAI model you've deployed on Azure (e.g. gpt-4o)
-model_turbo="" # the OpenAI model you've deployed on Azure (e.g. gpt-3.5-turbo)
+fallback_models=["..."]
-fallback_models=["..."] # the OpenAI model you've deployed on Azure (e.g. gpt-3.5-turbo)
 ```
 
+Passing custom headers to the underlying LLM Model API can be done by setting extra_headers parameter to litellm. 
+```
+[litellm]
+extra_headers='{"projectId": "<authorized projectId >", ...}') #The value of this setting should be a JSON string representing the desired headers, a ValueError is thrown otherwise.
+```
+This enables users to pass authorization tokens or API keys, when routing requests through an API management gateway.
+
+
+### Ollama
+
+You can run models locally through either [VLLM](https://docs.litellm.ai/docs/providers/vllm) or [Ollama](https://docs.litellm.ai/docs/providers/ollama)
+
+E.g. to use a new model locally via Ollama, set in `.secrets.toml` or in a configuration file:
+```
+[config]
+model = "ollama/qwen2.5-coder:32b"
+fallback_models=["ollama/qwen2.5-coder:32b"]
+custom_model_max_tokens=128000 # set the maximal input tokens for the model
+duplicate_examples=true # will duplicate the examples in the prompt, to help the model to generate structured output
+
+[ollama]
+api_base = "http://localhost:11434" # or whatever port you're running Ollama on
+```
+
+!!! note "Local models vs commercial models"
+    Qodo Merge is compatible with almost any AI model, but analyzing complex code repositories and pull requests requires a model specifically optimized for code analysis.
+    
+    Commercial models such as GPT-4, Claude Sonnet, and Gemini have demonstrated robust capabilities in generating structured output for code analysis tasks with large input. In contrast, most open-source models currently available (as of January 2025) face challenges with these complex tasks.
+
+    Based on our testing, local open-source models are suitable for experimentation and learning purposes (mainly for the `ask` command), but they are not suitable for production-level code analysis tasks.
+    
+    Hence, for production workflows and real-world usage, we recommend using commercial models.
+
 ### Hugging Face
 
-**Local**
-You can run Hugging Face models locally through either [VLLM](https://docs.litellm.ai/docs/providers/vllm) or [Ollama](https://docs.litellm.ai/docs/providers/ollama)
-
-E.g. to use a new Hugging Face model locally via Ollama, set:
-```
-[__init__.py]
-MAX_TOKENS = {
-    "model-name-on-ollama": <max_tokens>
-}
-e.g.
-MAX_TOKENS={
-    ...,
-    "ollama/llama2": 4096
-}
-
-
-[config] # in configuration.toml
-model = "ollama/llama2"
-model_turbo = "ollama/llama2"
-fallback_models=["ollama/llama2"]
-
-[ollama] # in .secrets.toml
-api_base = ... # the base url for your Hugging Face inference endpoint
-# e.g. if running Ollama locally, you may use:
-api_base = "http://localhost:11434/"
-```
-
-### Inference Endpoints
-
 To use a new model with Hugging Face Inference Endpoints, for example, set:
 ```
-[__init__.py]
-MAX_TOKENS = {
-    "model-name-on-huggingface": <max_tokens>
-}
-e.g.
-MAX_TOKENS={
-    ...,
-    "meta-llama/Llama-2-7b-chat-hf": 4096
-}
 [config] # in configuration.toml
 model = "huggingface/meta-llama/Llama-2-7b-chat-hf"
-model_turbo = "huggingface/meta-llama/Llama-2-7b-chat-hf"
 fallback_models=["huggingface/meta-llama/Llama-2-7b-chat-hf"]
+custom_model_max_tokens=... # set the maximal input tokens for the model
 
 [huggingface] # in .secrets.toml
 key = ... # your Hugging Face api key
@@ -91,7 +84,6 @@ To use Llama2 model with Replicate, for example, set:
 ```
 [config] # in configuration.toml
 model = "replicate/llama-2-70b-chat:2c1608e18606fad2812020dc541930f2d0495ce32eee50074220b87300bc16e1"
-model_turbo = "replicate/llama-2-70b-chat:2c1608e18606fad2812020dc541930f2d0495ce32eee50074220b87300bc16e1"
 fallback_models=["replicate/llama-2-70b-chat:2c1608e18606fad2812020dc541930f2d0495ce32eee50074220b87300bc16e1"]
 [replicate] # in .secrets.toml
 key = ...
@@ -107,7 +99,6 @@ To use Llama3 model with Groq, for example, set:
 ```
 [config] # in configuration.toml
 model = "llama3-70b-8192"
-model_turbo = "llama3-70b-8192"
 fallback_models = ["groq/llama3-70b-8192"]
 [groq] # in .secrets.toml
 key = ... # your Groq api key
@@ -121,7 +112,6 @@ To use Google's Vertex AI platform and its associated models (chat-bison/codecha
 ```
 [config] # in configuration.toml
 model = "vertex_ai/codechat-bison"
-model_turbo = "vertex_ai/codechat-bison"
 fallback_models="vertex_ai/codechat-bison"
 
 [vertexai] # in .secrets.toml
@@ -140,7 +130,6 @@ To use [Google AI Studio](https://aistudio.google.com/) models, set the relevant
 ```toml
 [config] # in configuration.toml
 model="google_ai_studio/gemini-1.5-flash"
-model_turbo="google_ai_studio/gemini-1.5-flash"
 fallback_models=["google_ai_studio/gemini-1.5-flash"]
 
 [google_ai_studio] # in .secrets.toml
@@ -156,7 +145,6 @@ To use Anthropic models, set the relevant models in the configuration section of
 ```
 [config]
 model="anthropic/claude-3-opus-20240229"
-model_turbo="anthropic/claude-3-opus-20240229"
 fallback_models=["anthropic/claude-3-opus-20240229"]
 ```
 
@@ -173,7 +161,6 @@ To use Amazon Bedrock and its foundational models, add the below configuration:
 ```
 [config] # in configuration.toml
 model="bedrock/anthropic.claude-3-sonnet-20240229-v1:0"
-model_turbo="bedrock/anthropic.claude-3-sonnet-20240229-v1:0"
 fallback_models=["bedrock/anthropic.claude-v2:1"]
 ```
 
@@ -187,20 +174,50 @@ drop_params = true
 
 AWS session is automatically authenticated from your environment, but you can also explicitly set `AWS_ACCESS_KEY_ID`, `AWS_SECRET_ACCESS_KEY` and `AWS_REGION_NAME` environment variables. Please refer to [this document](https://litellm.vercel.app/docs/providers/bedrock) for more details.
 
+### DeepSeek
+
+To use deepseek-chat model with DeepSeek, for example, set:
+
+```toml
+[config] # in configuration.toml
+model = "deepseek/deepseek-chat"
+fallback_models=["deepseek/deepseek-chat"]
+```
+
+and fill up your key
+
+```toml
+[deepseek] # in .secrets.toml
+key = ...
+```
+
+(you can obtain a deepseek-chat key from [here](https://platform.deepseek.com))
+
 ### Custom models
 
 If the relevant model doesn't appear [here](https://github.com/Codium-ai/pr-agent/blob/main/pr_agent/algo/__init__.py), you can still use it as a custom model:
 
-(1) Set the model name in the configuration file:
+1. Set the model name in the configuration file:
 ```
 [config]
 model="custom_model_name"
-model_turbo="custom_model_name"
 fallback_models=["custom_model_name"]
 ```
-(2) Set the maximal tokens for the model:
+2. Set the maximal tokens for the model:
 ```
 [config]
 custom_model_max_tokens= ...
 ```
-(3) Go to [litellm documentation](https://litellm.vercel.app/docs/proxy/quick_start#supported-llms), find the model you want to use, and set the relevant environment variables.
+3. Go to [litellm documentation](https://litellm.vercel.app/docs/proxy/quick_start#supported-llms), find the model you want to use, and set the relevant environment variables.
+
+4. Most reasoning models do not support chat-style inputs (`system` and `user` messages) or temperature settings. 
+To bypass chat templates and temperature controls, set `config.custom_reasoning_model = true` in your configuration file.
+
+## Dedicated parameters
+
+### OpenAI models
+
+[config]
+reasoning_efffort= = "medium" # "low", "medium", "high"
+
+With the OpenAI models that support reasoning effort (eg: o3-mini), you can specify its reasoning effort via `config` section. The default value is `medium`. You can change it to `high` or `low` based on your usage.

docs/docs/usage-guide/configuration_options.md

@@ -20,7 +20,7 @@ In terms of precedence, wiki configurations will override local configurations,
 
 `Platforms supported: GitHub, GitLab, Bitbucket`
 
-With Qodo Merge Pro, you can set configurations by creating a page called `.pr_agent.toml` in the [wiki](https://github.com/Codium-ai/pr-agent/wiki/pr_agent.toml) of the repo. 
+With Qodo Merge, you can set configurations by creating a page called `.pr_agent.toml` in the [wiki](https://github.com/Codium-ai/pr-agent/wiki/pr_agent.toml) of the repo.
 The advantage of this method is that it allows to set configurations without needing to commit new content to the repo - just edit the wiki page and **save**.
 
 

docs/docs/usage-guide/enabling_a_wiki.md

@@ -0,0 +1,33 @@
+`Supported Git Platforms: GitHub, GitLab, Bitbucket`
+
+
+For optimal functionality of Qodo Merge, we recommend enabling a wiki for each repository where Qodo Merge is installed. The wiki serves several important purposes:
+
+**Key Wiki Features: 💎**
+
+- Storing a [configuration file](https://qodo-merge-docs.qodo.ai/usage-guide/configuration_options/#wiki-configuration-file)
+- Defining a [`best_practices.md`](https://qodo-merge-docs.qodo.ai/tools/improve/#best-practices) file
+- Track [accepted suggestions](https://qodo-merge-docs.qodo.ai/tools/improve/#suggestion-tracking)
+- Facilitates learning over time by creating an [auto_best_practices.md](https://qodo-merge-docs.qodo.ai/core-abilities/auto_best_practices) file
+
+
+**Setup Instructions (GitHub):**
+
+To enable a wiki for your repository:
+
+1. Navigate to your repository's main page on GitHub
+2. Select "Settings" from the top navigation bar
+3. Locate the "Features" section
+4. Enable the "Wikis" option by checking the corresponding box
+5. Return to your repository's main page
+6. Look for the newly added "Wiki" tab in the top navigation
+7. Initialize your wiki by clicking "Create the first page" and saving (this step is important - without creating an initial page, the wiki will not be fully functional)
+
+### Why Wiki?
+
+- Your code (and its derivatives, including accepted code suggestions) is yours. Qodo Merge will never store it on external servers.
+- Repository changes typically require pull requests, which create overhead and are time-consuming. This process is too cumbersome for auto data aggregation, and is not very convenient even for managing frequently updated content like configuration files and best practices.
+- A repository wiki page provides an ideal balance:
+    - It lives within your repository, making it suitable for code-related documentation
+    - It enables quick updates without the overhead of pull requests
+    - It maintains full Git version control, allowing you to track changes over time.

docs/docs/usage-guide/index.md

@@ -5,6 +5,7 @@ It includes information on how to adjust Qodo Merge configurations, define which
 
 
 - [Introduction](./introduction.md)
+- [Enabling a Wiki](./enabling_a_wiki)
 - [Configuration File](./configuration_options.md)
 - [Usage and Automation](./automations_and_usage.md)
     - [Local Repo (CLI)](./automations_and_usage.md#local-repo-cli)
@@ -23,4 +24,4 @@ It includes information on how to adjust Qodo Merge configurations, define which
     - [Changing a model](./additional_configurations.md#changing-a-model)
     - [Patch Extra Lines](./additional_configurations.md#patch-extra-lines)
     - [Editing the prompts](./additional_configurations.md#editing-the-prompts)
-- [Qodo Merge Pro Models](./PR_agent_pro_models.md)
+- [Qodo Merge Models](./qodo_merge_models)

docs/docs/usage-guide/introduction.md

@@ -2,7 +2,7 @@
 After [installation](https://qodo-merge-docs.qodo.ai/installation/), there are three basic ways to invoke Qodo Merge:
 
 1. Locally running a CLI command
-2. Online usage - by [commenting](https://github.com/Codium-ai/pr-agent/pull/229#issuecomment-1695021901) on a PR
+2. Online usage - by [commenting](https://github.com/Codium-ai/pr-agent/pull/229#issuecomment-1695021901){:target="_blank"} on a PR
 3. Enabling Qodo Merge tools to run automatically when a new PR is opened
 
 
@@ -10,4 +10,3 @@ Specifically, CLI commands can be issued by invoking a pre-built [docker image](
 
 For online usage, you will need to setup either a [GitHub App](https://qodo-merge-docs.qodo.ai/installation/github/#run-as-a-github-app) or a [GitHub Action](https://qodo-merge-docs.qodo.ai/installation/github/#run-as-a-github-action) (GitHub), a [GitLab webhook](https://qodo-merge-docs.qodo.ai/installation/gitlab/#run-a-gitlab-webhook-server) (GitLab), or a [BitBucket App](https://qodo-merge-docs.qodo.ai/installation/bitbucket/#run-using-codiumai-hosted-bitbucket-app) (BitBucket).
 These platforms also enable to run Qodo Merge specific tools automatically when a new PR is opened, or on each push to a branch.
-

docs/docs/usage-guide/qodo_merge_models.md

@@ -0,0 +1,36 @@
+
+The default models used by Qodo Merge are a combination of Claude-3.5-sonnet and  OpenAI's GPT-4 models.
+
+### Selecting a Specific Model
+
+Users can configure Qodo Merge to use a specific model by editing the [configuration](https://qodo-merge-docs.qodo.ai/usage-guide/configuration_options/) file.
+The models supported by Qodo Merge are:
+
+- `claude-3-5-sonnet`
+- `gpt-4o`
+- `o3-mini`
+
+To restrict Qodo Merge to using only `Claude-3.5-sonnet`, add this setting:
+
+```
+[config]
+model="claude-3-5-sonnet"
+```
+
+To restrict Qodo Merge to using only `GPT-4o`, add this setting:
+```
+[config]
+model="gpt-4o"
+```
+
+[//]: # (To restrict Qodo Merge to using only `deepseek-r1` us-hosted, add this setting:)
+[//]: # (```)
+[//]: # ([config])
+[//]: # (model="deepseek/r1")
+[//]: # (```)
+
+To restrict Qodo Merge to using only `o3-mini`, add this setting:
+```
+[config]
+model="o3-mini"
+```

docs/mkdocs.yml

@@ -1,29 +1,26 @@
-site_name: Qodo Merge (formerly known as PR-Agent)
+site_name: Qodo Merge (and open-source PR-Agent)
-repo_url: https://github.com/Codium-ai/pr-agent
+repo_url: https://github.com/qodo-ai/pr-agent
-repo_name: Codium-ai/pr-agent
+repo_name: Qodo-ai/pr-agent
 
 nav:
   - Overview:
     - 'index.md'
-    - 💎 Qodo Merge Pro: 'overview/pr_agent_pro.md'
+    - 💎 Qodo Merge: 'overview/pr_agent_pro.md'
     - Data Privacy: 'overview/data_privacy.md'
   - Installation:
     - 'installation/index.md'
-    - Locally: 'installation/locally.md'
+    - PR-Agent: 'installation/pr_agent.md'
-    - GitHub: 'installation/github.md'
+    - 💎 Qodo Merge: 'installation/qodo_merge.md'
-    - GitLab: 'installation/gitlab.md'
-    - BitBucket: 'installation/bitbucket.md'
-    - Azure DevOps: 'installation/azure.md'
-    - 💎 Qodo Merge Pro: 'installation/pr_agent_pro.md'
   - Usage Guide:
     - 'usage-guide/index.md'
     - Introduction: 'usage-guide/introduction.md'
+    - Enabling a Wiki: 'usage-guide/enabling_a_wiki.md'
     - Configuration File: 'usage-guide/configuration_options.md'
     - Usage and Automation: 'usage-guide/automations_and_usage.md'
     - Managing Mail Notifications: 'usage-guide/mail_notifications.md'
     - Changing a Model: 'usage-guide/changing_a_model.md'
     - Additional Configurations: 'usage-guide/additional_configurations.md'
-    - 💎 Qodo Merge Pro Models: 'usage-guide/PR_agent_pro_models'
+    - 💎 Qodo Merge Models: 'usage-guide/qodo_merge_models.md'
   - Tools:
     - 'tools/index.md'
     - Describe: 'tools/describe.md'
@@ -41,8 +38,11 @@ nav:
     - 💎 Custom Prompt: 'tools/custom_prompt.md'
     - 💎 CI Feedback: 'tools/ci_feedback.md'
     - 💎 Similar Code: 'tools/similar_code.md'
+    - 💎 Implement: 'tools/implement.md'
   - Core Abilities:
       - 'core-abilities/index.md'
+      - Fetching ticket context: 'core-abilities/fetching_ticket_context.md'
+      - Auto best practices: 'core-abilities/auto_best_practices.md'
       - Local and global metadata: 'core-abilities/metadata.md'
       - Dynamic context: 'core-abilities/dynamic_context.md'
       - Self-reflection: 'core-abilities/self_reflection.md'
@@ -58,6 +58,7 @@ nav:
       - Data Privacy: 'chrome-extension/data_privacy.md'
   - FAQ:
       - FAQ: 'faq/index.md'
+  - AI Docs Search: 'ai_search/index.md'
 #  - Code Fine-tuning Benchmark: 'finetuning_benchmark/index.md'
 
 theme:
@@ -153,4 +154,4 @@ markdown_extensions:
 
 
 copyright: |
-  &copy; 2024 <a href="https://www.codium.ai/"  target="_blank" rel="noopener">CodiumAI</a>
+  &copy; 2025 <a href="https://www.codium.ai/"  target="_blank" rel="noopener">QodoAI</a>

docs/overrides/partials/footer.html

@@ -82,7 +82,7 @@
 
 <footer class="wrapper">
   <div class="container">
-    <p class="footer-text">© 2024 <a href="https://www.qodo.ai/" target="_blank" rel="noopener">Qodo</a></p>
+    <p class="footer-text">© 2025 <a href="https://www.qodo.ai/" target="_blank" rel="noopener">Qodo</a></p>
     <div class="footer-links">
       <a href="https://qodo-gen-docs.qodo.ai/">Qodo Gen</a>
       <p>|</p>

docs/overrides/partials/integrations/analytics/custom.html

@@ -3,5 +3,5 @@
     new Date().getTime(),event:'gtm.js'});var f=d.getElementsByTagName(s)[0],
     j=d.createElement(s),dl=l!='dataLayer'?'&l='+l:'';j.async=true;j.src=
     'https://www.googletagmanager.com/gtm.js?id='+i+dl;f.parentNode.insertBefore(j,f);
-    })(window,document,'script','dataLayer','GTM-5C9KZBM3');</script>
+    })(window,document,'script','dataLayer','GTM-M6PJSFV');</script>
     <!-- End Google Tag Manager -->

pr_agent/__init__.py

@@ -1 +0,0 @@
-

pr_agent/agent/pr_agent.py

@@ -3,7 +3,7 @@ from functools import partial
 
 from pr_agent.algo.ai_handlers.base_ai_handler import BaseAiHandler
 from pr_agent.algo.ai_handlers.litellm_ai_handler import LiteLLMAIHandler
-
+from pr_agent.algo.cli_args import CliArgs
 from pr_agent.algo.utils import update_settings_from_args
 from pr_agent.config_loader import get_settings
 from pr_agent.git_providers.utils import apply_repo_settings
@@ -14,7 +14,6 @@ from pr_agent.tools.pr_config import PRConfig
 from pr_agent.tools.pr_description import PRDescription
 from pr_agent.tools.pr_generate_labels import PRGenerateLabels
 from pr_agent.tools.pr_help_message import PRHelpMessage
-from pr_agent.tools.pr_information_from_user import PRInformationFromUser
 from pr_agent.tools.pr_line_questions import PR_LineQuestions
 from pr_agent.tools.pr_questions import PRQuestions
 from pr_agent.tools.pr_reviewer import PRReviewer
@@ -26,8 +25,6 @@ command2class = {
     "answer": PRReviewer,
     "review": PRReviewer,
     "review_pr": PRReviewer,
-    "reflect": PRInformationFromUser,
-    "reflect_and_review": PRInformationFromUser,
     "describe": PRDescription,
     "describe_pr": PRDescription,
     "improve": PRCodeSuggestions,
@@ -47,10 +44,10 @@ command2class = {
 commands = list(command2class.keys())
 
 
+
 class PRAgent:
     def __init__(self, ai_handler: partial[BaseAiHandler,] = LiteLLMAIHandler):
         self.ai_handler = ai_handler  # will be initialized in run_action
-        self.forbidden_cli_args = ['enable_auto_approval']
 
     async def handle_request(self, pr_url, request, notify=None) -> bool:
         # First, apply repo specific settings if exists
@@ -65,24 +62,37 @@ class PRAgent:
         else:
             action, *args = request
 
-        if args:
+        # validate args
-            for forbidden_arg in self.forbidden_cli_args:
+        is_valid, arg = CliArgs.validate_user_args(args)
-                for arg in args:
+        if not is_valid:
-                    if forbidden_arg in arg:
             get_logger().error(
-                            f"CLI argument for param '{forbidden_arg}' is forbidden. Use instead a configuration file."
+                f"CLI argument for param '{arg}' is forbidden. Use instead a configuration file."
             )
             return False
+
+        # Update settings from args
         args = update_settings_from_args(args)
 
+        # Append the response language in the extra instructions
+        response_language = get_settings().config.get('response_language', 'en-us')
+        if response_language.lower() != 'en-us':
+            get_logger().info(f'User has set the response language to: {response_language}')
+            for key in get_settings():
+                setting = get_settings().get(key)
+                if str(type(setting)) == "<class 'dynaconf.utils.boxing.DynaBox'>":
+                    if hasattr(setting, 'extra_instructions'):
+                        current_extra_instructions = setting.extra_instructions
+                        if current_extra_instructions:
+                            setting.extra_instructions = current_extra_instructions+ f"\n======\n\nIn addition, Your response MUST be written in the language corresponding to local code: {response_language}. This is crucial."
+                        else:
+                            setting.extra_instructions = f"Your response MUST be written in the language corresponding to locale code: '{response_language}'. This is crucial."
+
         action = action.lstrip("/").lower()
         if action not in command2class:
-            get_logger().debug(f"Unknown command: {action}")
+            get_logger().error(f"Unknown command: {action}")
             return False
         with get_logger().contextualize(command=action, pr_url=pr_url):
             get_logger().info("PR-Agent request handler started", analytics=True)
-            if action == "reflect_and_review":
-                get_settings().pr_reviewer.ask_and_reflect = True
             if action == "answer":
                 if notify:
                     notify()

pr_agent/algo/__init__.py

@@ -19,27 +19,38 @@ MAX_TOKENS = {
     'gpt-4o-mini': 128000,  # 128K, but may be limited by config.max_model_tokens
     'gpt-4o-mini-2024-07-18': 128000,  # 128K, but may be limited by config.max_model_tokens
     'gpt-4o-2024-08-06': 128000,  # 128K, but may be limited by config.max_model_tokens
+    'gpt-4o-2024-11-20': 128000,  # 128K, but may be limited by config.max_model_tokens
     'o1-mini': 128000,  # 128K, but may be limited by config.max_model_tokens
     'o1-mini-2024-09-12': 128000,  # 128K, but may be limited by config.max_model_tokens
     'o1-preview': 128000,  # 128K, but may be limited by config.max_model_tokens
     'o1-preview-2024-09-12': 128000,  # 128K, but may be limited by config.max_model_tokens
+    'o1-2024-12-17': 204800,  # 200K, but may be limited by config.max_model_tokens
+    'o1': 204800,  # 200K, but may be limited by config.max_model_tokens
+    'o3-mini': 204800,  # 200K, but may be limited by config.max_model_tokens
+    'o3-mini-2025-01-31': 204800,  # 200K, but may be limited by config.max_model_tokens
     'claude-instant-1': 100000,
     'claude-2': 100000,
     'command-nightly': 4096,
+    'deepseek/deepseek-chat': 128000,  # 128K, but may be limited by config.max_model_tokens
+    'deepseek/deepseek-reasoner': 64000,  # 64K, but may be limited by config.max_model_tokens
     'replicate/llama-2-70b-chat:2c1608e18606fad2812020dc541930f2d0495ce32eee50074220b87300bc16e1': 4096,
     'meta-llama/Llama-2-7b-chat-hf': 4096,
     'vertex_ai/codechat-bison': 6144,
     'vertex_ai/codechat-bison-32k': 32000,
     'vertex_ai/claude-3-haiku@20240307': 100000,
+    'vertex_ai/claude-3-5-haiku@20241022': 100000,
     'vertex_ai/claude-3-sonnet@20240229': 100000,
     'vertex_ai/claude-3-opus@20240229': 100000,
     'vertex_ai/claude-3-5-sonnet@20240620': 100000,
     'vertex_ai/claude-3-5-sonnet-v2@20241022': 100000,
+    'vertex_ai/claude-3-7-sonnet@20250219': 200000,
     'vertex_ai/gemini-1.5-pro': 1048576,
     'vertex_ai/gemini-1.5-flash': 1048576,
+    'vertex_ai/gemini-2.0-flash': 1048576,
     'vertex_ai/gemma2': 8200,
     'gemini/gemini-1.5-pro': 1048576,
     'gemini/gemini-1.5-flash': 1048576,
+    'gemini/gemini-2.0-flash': 1048576,
     'codechat-bison': 6144,
     'codechat-bison-32k': 32000,
     'anthropic.claude-instant-v1': 100000,
@@ -48,20 +59,25 @@ MAX_TOKENS = {
     'anthropic/claude-3-opus-20240229': 100000,
     'anthropic/claude-3-5-sonnet-20240620': 100000,
     'anthropic/claude-3-5-sonnet-20241022': 100000,
+    'anthropic/claude-3-7-sonnet-20250219': 200000,
+    'anthropic/claude-3-5-haiku-20241022': 100000,
     'bedrock/anthropic.claude-instant-v1': 100000,
     'bedrock/anthropic.claude-v2': 100000,
     'bedrock/anthropic.claude-v2:1': 100000,
     'bedrock/anthropic.claude-3-sonnet-20240229-v1:0': 100000,
     'bedrock/anthropic.claude-3-haiku-20240307-v1:0': 100000,
+    'bedrock/anthropic.claude-3-5-haiku-20241022-v1:0': 100000,
     'bedrock/anthropic.claude-3-5-sonnet-20240620-v1:0': 100000,
     'bedrock/anthropic.claude-3-5-sonnet-20241022-v2:0': 100000,
+    'bedrock/anthropic.claude-3-7-sonnet-20250219-v1:0': 200000,
+    "bedrock/us.anthropic.claude-3-5-sonnet-20241022-v2:0": 100000,
     'claude-3-5-sonnet': 100000,
     'groq/llama3-8b-8192': 8192,
     'groq/llama3-70b-8192': 8192,
+    'groq/llama-3.1-8b-instant': 8192,
+    'groq/llama-3.3-70b-versatile': 128000,
     'groq/mixtral-8x7b-32768': 32768,
-    'groq/llama-3.1-8b-instant': 131072,
+    'groq/gemma2-9b-it': 8192,
-    'groq/llama-3.1-70b-versatile': 131072,
-    'groq/llama-3.1-405b-reasoning': 131072,
     'ollama/llama3': 4096,
     'watsonx/meta-llama/llama-3-8b-instruct': 4096,
     "watsonx/meta-llama/llama-3-70b-instruct": 4096,
@@ -70,3 +86,26 @@ MAX_TOKENS = {
     "watsonx/ibm/granite-34b-code-instruct": 8191,
     "watsonx/mistralai/mistral-large": 32768,
 }
+
+USER_MESSAGE_ONLY_MODELS = [
+    "deepseek/deepseek-reasoner",
+    "o1-mini",
+    "o1-mini-2024-09-12",
+    "o1-preview"
+]
+
+NO_SUPPORT_TEMPERATURE_MODELS = [
+    "deepseek/deepseek-reasoner",
+    "o1-mini",
+    "o1-mini-2024-09-12",
+    "o1",
+    "o1-2024-12-17",
+    "o3-mini",
+    "o3-mini-2025-01-31",
+    "o1-preview"
+]
+
+SUPPORT_REASONING_EFFORT_MODELS = [
+    "o3-mini",
+    "o3-mini-2025-01-31"
+]

pr_agent/algo/ai_handlers/langchain_ai_handler.py

@@ -1,17 +1,18 @@
 try:
-    from langchain_openai import ChatOpenAI, AzureChatOpenAI
+    from langchain_core.messages import HumanMessage, SystemMessage
-    from langchain_core.messages import SystemMessage, HumanMessage
+    from langchain_openai import AzureChatOpenAI, ChatOpenAI
 except:  # we don't enforce langchain as a dependency, so if it's not installed, just move on
     pass
 
+import functools
+
+from openai import APIError, RateLimitError, Timeout
+from retry import retry
+
 from pr_agent.algo.ai_handlers.base_ai_handler import BaseAiHandler
 from pr_agent.config_loader import get_settings
 from pr_agent.log import get_logger
 
-from openai import APIError, RateLimitError, Timeout
-from retry import retry
-import functools
-
 OPENAI_RETRIES = 5
 
 
@@ -73,4 +74,3 @@ class LangChainOpenAIHandler(BaseAiHandler):
                 raise ValueError(f"OpenAI {e.name} is required") from e
             else:
                 raise e
-

pr_agent/algo/ai_handlers/litellm_ai_handler.py

@@ -1,13 +1,17 @@
 import os
-import requests
+
 import litellm
 import openai
+import requests
 from litellm import acompletion
 from tenacity import retry, retry_if_exception_type, stop_after_attempt
 
+from pr_agent.algo import NO_SUPPORT_TEMPERATURE_MODELS, SUPPORT_REASONING_EFFORT_MODELS, USER_MESSAGE_ONLY_MODELS
 from pr_agent.algo.ai_handlers.base_ai_handler import BaseAiHandler
+from pr_agent.algo.utils import ReasoningEffort, get_version
 from pr_agent.config_loader import get_settings
 from pr_agent.log import get_logger
+import json
 
 OPENAI_RETRIES = 5
 
@@ -88,6 +92,19 @@ class LiteLLMAIHandler(BaseAiHandler):
         if get_settings().get("GOOGLE_AI_STUDIO.GEMINI_API_KEY", None):
           os.environ["GEMINI_API_KEY"] = get_settings().google_ai_studio.gemini_api_key
 
+        # Support deepseek models
+        if get_settings().get("DEEPSEEK.KEY", None):
+            os.environ['DEEPSEEK_API_KEY'] = get_settings().get("DEEPSEEK.KEY")
+
+        # Models that only use user meessage
+        self.user_message_only_models = USER_MESSAGE_ONLY_MODELS
+
+        # Model that doesn't support temperature argument
+        self.no_support_temperature_models = NO_SUPPORT_TEMPERATURE_MODELS
+
+        # Models that support reasoning effort
+        self.support_reasoning_models = SUPPORT_REASONING_EFFORT_MODELS
+
     def prepare_logs(self, response, system, user, resp, finish_reason):
         response_log = response.dict().copy()
         response_log['system'] = system
@@ -131,7 +148,7 @@ class LiteLLMAIHandler(BaseAiHandler):
         if "langfuse" in callbacks:
             metadata.update({
                 "trace_name": command,
-                "tags": [git_provider, command],
+                "tags": [git_provider, command, f'version:{get_version()}'],
                 "trace_metadata": {
                     "command": command,
                     "pr_url": pr_url,
@@ -140,7 +157,7 @@ class LiteLLMAIHandler(BaseAiHandler):
         if "langsmith" in callbacks:
             metadata.update({
                 "run_name": command,
-                "tags": [git_provider, command],
+                "tags": [git_provider, command, f'version:{get_version()}'],
                 "extra": {
                     "metadata": {
                         "command": command,
@@ -191,13 +208,11 @@ class LiteLLMAIHandler(BaseAiHandler):
                 messages[1]["content"] = [{"type": "text", "text": messages[1]["content"]},
                                           {"type": "image_url", "image_url": {"url": img_path}}]
 
-            # Currently O1 does not support separate system and user prompts
+            # Currently, some models do not support a separate system and user prompts
-            O1_MODEL_PREFIX = 'o1-'
+            if model in self.user_message_only_models or get_settings().config.custom_reasoning_model:
-            model_type = model.split('/')[-1] if '/' in model else model
-            if model_type.startswith(O1_MODEL_PREFIX):
                 user = f"{system}\n\n\n{user}"
                 system = ""
-                get_logger().info(f"Using O1 model, combining system and user prompts")
+                get_logger().info(f"Using model {model}, combining system and user prompts")
                 messages = [{"role": "user", "content": user}]
                 kwargs = {
                     "model": model,
@@ -211,11 +226,22 @@ class LiteLLMAIHandler(BaseAiHandler):
                     "model": model,
                     "deployment_id": deployment_id,
                     "messages": messages,
-                    "temperature": temperature,
                     "timeout": get_settings().config.ai_timeout,
                     "api_base": self.api_base,
                 }
 
+            # Add temperature only if model supports it
+            if model not in self.no_support_temperature_models and not get_settings().config.custom_reasoning_model:
+                # get_logger().info(f"Adding temperature with value {temperature} to model {model}.")
+                kwargs["temperature"] = temperature
+
+            # Add reasoning_effort if model supports it
+            if (model in self.support_reasoning_models):
+                supported_reasoning_efforts = [ReasoningEffort.HIGH.value, ReasoningEffort.MEDIUM.value, ReasoningEffort.LOW.value]
+                reasoning_effort = get_settings().config.reasoning_effort if (get_settings().config.reasoning_effort in supported_reasoning_efforts) else ReasoningEffort.MEDIUM.value
+                get_logger().info(f"Adding reasoning_effort with value {reasoning_effort} to model {model}.")
+                kwargs["reasoning_effort"] = reasoning_effort
+
             if get_settings().litellm.get("enable_callbacks", False):
                 kwargs = self.add_litellm_callbacks(kwargs)
 
@@ -229,6 +255,16 @@ class LiteLLMAIHandler(BaseAiHandler):
             if self.repetition_penalty:
                 kwargs["repetition_penalty"] = self.repetition_penalty
 
+            #Added support for extra_headers while using litellm to call underlying model, via a api management gateway, would allow for passing custom headers for security and authorization
+            if get_settings().get("LITELLM.EXTRA_HEADERS", None):
+                try:
+                    litellm_extra_headers = json.loads(get_settings().litellm.extra_headers)
+                    if not isinstance(litellm_extra_headers, dict):
+                        raise ValueError("LITELLM.EXTRA_HEADERS must be a JSON object")
+                except json.JSONDecodeError as e:
+                    raise ValueError(f"LITELLM.EXTRA_HEADERS contains invalid JSON: {str(e)}")
+                kwargs["extra_headers"] = litellm_extra_headers
+            
             get_logger().debug("Prompts", artifact={"system": system, "user": user})
             
             if get_settings().config.verbosity_level >= 2:

pr_agent/algo/ai_handlers/openai_ai_handler.py

@@ -4,6 +4,7 @@ import openai
 from openai import APIError, AsyncOpenAI, RateLimitError, Timeout
 from retry import retry
 
+from pr_agent.algo.ai_handlers.base_ai_handler import BaseAiHandler
 from pr_agent.config_loader import get_settings
 from pr_agent.log import get_logger
 
@@ -41,7 +42,6 @@ class OpenAIHandler(BaseAiHandler):
            tries=OPENAI_RETRIES, delay=2, backoff=2, jitter=(1, 3))
     async def chat_completion(self, model: str, system: str, user: str, temperature: float = 0.2):
         try:
-            deployment_id = self.deployment_id
             get_logger().info("System: ", system)
             get_logger().info("User: ", user)
             messages = [{"role": "system", "content": system}, {"role": "user", "content": user}]

pr_agent/algo/cli_args.py

@@ -0,0 +1,34 @@
+from base64 import b64decode
+import hashlib
+
+class CliArgs:
+    @staticmethod
+    def validate_user_args(args: list) -> (bool, str):
+        try:
+            if not args:
+                return True, ""
+
+            # decode forbidden args
+            _encoded_args = 'ZW5hYmxlX2F1dG9fYXBwcm92YWw=:YXBwcm92ZV9wcl9vbl9zZWxmX3Jldmlldw==:YmFzZV91cmw=:dXJs:YXBwX25hbWU=:c2VjcmV0X3Byb3ZpZGVy:Z2l0X3Byb3ZpZGVy:c2tpcF9rZXlz:b3BlbmFpLmtleQ==:QU5BTFlUSUNTX0ZPTERFUg==:dXJp:YXBwX2lk:d2ViaG9va19zZWNyZXQ=:YmVhcmVyX3Rva2Vu:UEVSU09OQUxfQUNDRVNTX1RPS0VO:b3ZlcnJpZGVfZGVwbG95bWVudF90eXBl:cHJpdmF0ZV9rZXk=:bG9jYWxfY2FjaGVfcGF0aA==:ZW5hYmxlX2xvY2FsX2NhY2hl:amlyYV9iYXNlX3VybA==:YXBpX2Jhc2U=:YXBpX3R5cGU=:YXBpX3ZlcnNpb24=:c2tpcF9rZXlz'
+            forbidden_cli_args = []
+            for e in _encoded_args.split(':'):
+                forbidden_cli_args.append(b64decode(e).decode())
+
+            # lowercase all forbidden args
+            for i, _ in enumerate(forbidden_cli_args):
+                forbidden_cli_args[i] = forbidden_cli_args[i].lower()
+                if '.' not in forbidden_cli_args[i]:
+                    forbidden_cli_args[i] = '.' + forbidden_cli_args[i]
+
+            for arg in args:
+                if arg.startswith('--'):
+                    arg_word = arg.lower()
+                    arg_word = arg_word.replace('__', '.')  # replace double underscore with dot, e.g. --openai__key -> --openai.key
+                    for forbidden_arg_word in forbidden_cli_args:
+                        if forbidden_arg_word in arg_word:
+                            return False, forbidden_arg_word
+            return True, ""
+        except Exception as e:
+            return False, str(e)
+
+

pr_agent/algo/git_patch_processing.py

@@ -3,17 +3,18 @@ from __future__ import annotations
 import re
 import traceback
 
-from pr_agent.config_loader import get_settings
 from pr_agent.algo.types import EDIT_TYPE, FilePatchInfo
+from pr_agent.config_loader import get_settings
 from pr_agent.log import get_logger
 
 
 def extend_patch(original_file_str, patch_str, patch_extra_lines_before=0,
-                 patch_extra_lines_after=0, filename: str = "") -> str:
+                 patch_extra_lines_after=0, filename: str = "", new_file_str="") -> str:
     if not patch_str or (patch_extra_lines_before == 0 and patch_extra_lines_after == 0) or not original_file_str:
         return patch_str
 
     original_file_str = decode_if_bytes(original_file_str)
+    new_file_str = decode_if_bytes(new_file_str)
     if not original_file_str:
         return patch_str
 
@@ -22,7 +23,7 @@ def extend_patch(original_file_str, patch_str, patch_extra_lines_before=0,
 
     try:
         extended_patch_str = process_patch_lines(patch_str, original_file_str,
-                                                 patch_extra_lines_before, patch_extra_lines_after)
+                                                 patch_extra_lines_before, patch_extra_lines_after, new_file_str)
     except Exception as e:
         get_logger().warning(f"Failed to extend patch: {e}", artifact={"traceback": traceback.format_exc()})
         return patch_str
@@ -31,7 +32,7 @@ def extend_patch(original_file_str, patch_str, patch_extra_lines_before=0,
 
 
 def decode_if_bytes(original_file_str):
-    if isinstance(original_file_str, bytes):
+    if isinstance(original_file_str, (bytes, bytearray)):
         try:
             return original_file_str.decode('utf-8')
         except UnicodeDecodeError:
@@ -52,32 +53,36 @@ def should_skip_patch(filename):
     return False
 
 
-def process_patch_lines(patch_str, original_file_str, patch_extra_lines_before, patch_extra_lines_after):
+def process_patch_lines(patch_str, original_file_str, patch_extra_lines_before, patch_extra_lines_after, new_file_str=""):
     allow_dynamic_context = get_settings().config.allow_dynamic_context
     patch_extra_lines_before_dynamic = get_settings().config.max_extra_lines_before_dynamic_context
 
-    original_lines = original_file_str.splitlines()
+    file_original_lines = original_file_str.splitlines()
-    len_original_lines = len(original_lines)
+    file_new_lines = new_file_str.splitlines() if new_file_str else []
+    len_original_lines = len(file_original_lines)
     patch_lines = patch_str.splitlines()
     extended_patch_lines = []
 
+    is_valid_hunk = True
     start1, size1, start2, size2 = -1, -1, -1, -1
     RE_HUNK_HEADER = re.compile(
         r"^@@ -(\d+)(?:,(\d+))? \+(\d+)(?:,(\d+))? @@[ ]?(.*)")
     try:
-        for line in patch_lines:
+        for i,line in enumerate(patch_lines):
             if line.startswith('@@'):
                 match = RE_HUNK_HEADER.match(line)
                 # identify hunk header
                 if match:
                     # finish processing previous hunk
-                    if start1 != -1 and patch_extra_lines_after > 0:
+                    if is_valid_hunk and (start1 != -1 and patch_extra_lines_after > 0):
-                        delta_lines = [f' {line}' for line in original_lines[start1 + size1 - 1:start1 + size1 - 1 + patch_extra_lines_after]]
+                        delta_lines_original = [f' {line}' for line in file_original_lines[start1 + size1 - 1:start1 + size1 - 1 + patch_extra_lines_after]]
-                        extended_patch_lines.extend(delta_lines)
+                        extended_patch_lines.extend(delta_lines_original)
 
                     section_header, size1, size2, start1, start2 = extract_hunk_headers(match)
 
-                    if patch_extra_lines_before > 0 or patch_extra_lines_after > 0:
+                    is_valid_hunk = check_if_hunk_lines_matches_to_file(i, file_original_lines, patch_lines, start1)
+
+                    if is_valid_hunk and (patch_extra_lines_before > 0 or patch_extra_lines_after > 0):
                         def _calc_context_limits(patch_lines_before):
                             extended_start1 = max(1, start1 - patch_lines_before)
                             extended_size1 = size1 + (start1 - extended_start1) + patch_extra_lines_after
@@ -90,12 +95,15 @@ def process_patch_lines(patch_str, original_file_str, patch_extra_lines_before,
                                 extended_size2 = max(extended_size2 - delta_cap, size2)
                             return extended_start1, extended_size1, extended_start2, extended_size2
 
-                        if allow_dynamic_context:
+                        if allow_dynamic_context and file_new_lines:
                             extended_start1, extended_size1, extended_start2, extended_size2 = \
                                 _calc_context_limits(patch_extra_lines_before_dynamic)
-                            lines_before = original_lines[extended_start1 - 1:start1 - 1]
+
+                            lines_before_original = file_original_lines[extended_start1 - 1:start1 - 1]
+                            lines_before_new = file_new_lines[extended_start2 - 1:start2 - 1]
                             found_header = False
-                            for i, line, in enumerate(lines_before):
+                            if lines_before_original == lines_before_new: # Making sure no changes from a previous hunk
+                                for i, line, in enumerate(lines_before_original):
                                     if section_header in line:
                                         found_header = True
                                         # Update start and size in one line each
@@ -104,6 +112,11 @@ def process_patch_lines(patch_str, original_file_str, patch_extra_lines_before,
                                         # get_logger().debug(f"Found section header in line {i} before the hunk")
                                         section_header = ''
                                         break
+                            else:
+                                get_logger().debug(f"Extra lines before hunk are different in original and new file - dynamic context",
+                                                   artifact={"lines_before_original": lines_before_original,
+                                                             "lines_before_new": lines_before_new})
+
                             if not found_header:
                                 # get_logger().debug(f"Section header not found in the extra lines before the hunk")
                                 extended_start1, extended_size1, extended_start2, extended_size2 = \
@@ -112,11 +125,23 @@ def process_patch_lines(patch_str, original_file_str, patch_extra_lines_before,
                             extended_start1, extended_size1, extended_start2, extended_size2 = \
                                 _calc_context_limits(patch_extra_lines_before)
 
-                        delta_lines = [f' {line}' for line in original_lines[extended_start1 - 1:start1 - 1]]
+                        # check if extra lines before hunk are different in original and new file
+                        delta_lines_original = [f' {line}' for line in file_original_lines[extended_start1 - 1:start1 - 1]]
+                        if file_new_lines:
+                            delta_lines_new = [f' {line}' for line in file_new_lines[extended_start2 - 1:start2 - 1]]
+                            if delta_lines_original != delta_lines_new:
+                                get_logger().debug(f"Extra lines before hunk are different in original and new file",
+                                                   artifact={"delta_lines_original": delta_lines_original,
+                                                             "delta_lines_new": delta_lines_new})
+                                extended_start1 = start1
+                                extended_size1 = size1
+                                extended_start2 = start2
+                                extended_size2 = size2
+                                delta_lines_original = []
 
                         #  logic to remove section header if its in the extra delta lines (in dynamic context, this is also done)
                         if section_header and not allow_dynamic_context:
-                            for line in delta_lines:
+                            for line in delta_lines_original:
                                 if section_header in line:
                                     section_header = ''  # remove section header if it is in the extra delta lines
                                     break
@@ -125,12 +150,12 @@ def process_patch_lines(patch_str, original_file_str, patch_extra_lines_before,
                         extended_size1 = size1
                         extended_start2 = start2
                         extended_size2 = size2
-                        delta_lines = []
+                        delta_lines_original = []
                     extended_patch_lines.append('')
                     extended_patch_lines.append(
                         f'@@ -{extended_start1},{extended_size1} '
                         f'+{extended_start2},{extended_size2} @@ {section_header}')
-                    extended_patch_lines.extend(delta_lines)  # one to zero based
+                    extended_patch_lines.extend(delta_lines_original)  # one to zero based
                     continue
             extended_patch_lines.append(line)
     except Exception as e:
@@ -138,15 +163,41 @@ def process_patch_lines(patch_str, original_file_str, patch_extra_lines_before,
         return patch_str
 
     # finish processing last hunk
-    if start1 != -1 and patch_extra_lines_after > 0:
+    if start1 != -1 and patch_extra_lines_after > 0 and is_valid_hunk:
-        delta_lines = original_lines[start1 + size1 - 1:start1 + size1 - 1 + patch_extra_lines_after]
+        delta_lines_original = file_original_lines[start1 + size1 - 1:start1 + size1 - 1 + patch_extra_lines_after]
         # add space at the beginning of each extra line
-        delta_lines = [f' {line}' for line in delta_lines]
+        delta_lines_original = [f' {line}' for line in delta_lines_original]
-        extended_patch_lines.extend(delta_lines)
+        extended_patch_lines.extend(delta_lines_original)
 
     extended_patch_str = '\n'.join(extended_patch_lines)
     return extended_patch_str
 
+def check_if_hunk_lines_matches_to_file(i, original_lines, patch_lines, start1):
+    """
+    Check if the hunk lines match the original file content. We saw cases where the hunk header line doesn't match the original file content, and then
+    extending the hunk with extra lines before the hunk header can cause the hunk to be invalid.
+    """
+    is_valid_hunk = True
+    try:
+        if i + 1 < len(patch_lines) and patch_lines[i + 1][0] == ' ': # an existing line in the file
+            if patch_lines[i + 1].strip() != original_lines[start1 - 1].strip():
+                # check if different encoding is needed
+                original_line = original_lines[start1 - 1].strip()
+                for encoding in ['iso-8859-1', 'latin-1', 'ascii', 'utf-16']:
+                    try:
+                        if original_line.encode(encoding).decode().strip() == patch_lines[i + 1].strip():
+                            get_logger().info(f"Detected different encoding in hunk header line {start1}, needed encoding: {encoding}")
+                            return False # we still want to avoid extending the hunk. But we don't want to log an error
+                    except:
+                        pass
+
+                is_valid_hunk = False
+                get_logger().info(
+                    f"Invalid hunk in PR, line {start1} in hunk header doesn't match the original file content")
+    except:
+        pass
+    return is_valid_hunk
+
 
 def extract_hunk_headers(match):
     res = list(match.groups())
@@ -268,7 +319,7 @@ __old hunk__
     """
     # if the file was deleted, return a message indicating that the file was deleted
     if hasattr(file, 'edit_type') and file.edit_type == EDIT_TYPE.DELETED:
-        return f"\n\n## file '{file.filename.strip()}' was deleted\n"
+        return f"\n\n## File '{file.filename.strip()}' was deleted\n"
 
     patch_with_lines_str = f"\n\n## File: '{file.filename.strip()}'\n"
     patch_lines = patch.splitlines()
@@ -343,8 +394,8 @@ __old hunk__
     return patch_with_lines_str.rstrip()
 
 
-def extract_hunk_lines_from_patch(patch: str, file_name, line_start, line_end, side) -> tuple[str, str]:
+def extract_hunk_lines_from_patch(patch: str, file_name, line_start, line_end, side, remove_trailing_chars: bool = True) -> tuple[str, str]:
-
+    try:
         patch_with_lines_str = f"\n\n## File: '{file_name.strip()}'\n\n"
         selected_lines = ""
         patch_lines = patch.splitlines()
@@ -387,5 +438,12 @@ def extract_hunk_lines_from_patch(patch: str, file_name, line_start, line_end, s
                 patch_with_lines_str += line + '\n'
                 if not line.startswith('-'): # currently we don't support /ask line for deleted lines
                     selected_lines_num += 1
+    except Exception as e:
+        get_logger().error(f"Failed to extract hunk lines from patch: {e}", artifact={"traceback": traceback.format_exc()})
+        return "", ""
 
-    return patch_with_lines_str.rstrip(), selected_lines.rstrip()
+    if remove_trailing_chars:
+        patch_with_lines_str = patch_with_lines_str.rstrip()
+        selected_lines = selected_lines.rstrip()
+
+    return patch_with_lines_str, selected_lines

pr_agent/algo/language_handler.py

@@ -4,8 +4,6 @@ from typing import Dict
 from pr_agent.config_loader import get_settings
 
 
-
-
 def filter_bad_extensions(files):
     # Bad Extensions, source: https://github.com/EleutherAI/github-downloader/blob/345e7c4cbb9e0dc8a0615fd995a08bf9d73b3fe6/download_repo_text.py  # noqa: E501
     bad_extensions = get_settings().bad_extensions.default

pr_agent/algo/pr_processing.py

@@ -5,14 +5,15 @@ from typing import Callable, List, Tuple
 
 from github import RateLimitExceededException
 
-from pr_agent.algo.git_patch_processing import convert_to_hunks_with_lines_numbers, extend_patch, handle_patch_deletions
-from pr_agent.algo.language_handler import sort_files_by_main_languages
 from pr_agent.algo.file_filter import filter_ignored
+from pr_agent.algo.git_patch_processing import (
+    convert_to_hunks_with_lines_numbers, extend_patch, handle_patch_deletions)
+from pr_agent.algo.language_handler import sort_files_by_main_languages
 from pr_agent.algo.token_handler import TokenHandler
-from pr_agent.algo.utils import get_max_tokens, clip_tokens, ModelType
+from pr_agent.algo.types import EDIT_TYPE, FilePatchInfo
+from pr_agent.algo.utils import ModelType, clip_tokens, get_max_tokens, get_weak_model
 from pr_agent.config_loader import get_settings
 from pr_agent.git_providers.git_provider import GitProvider
-from pr_agent.algo.types import EDIT_TYPE, FilePatchInfo
 from pr_agent.log import get_logger
 
 DELETED_FILES_ = "Deleted files:\n"
@@ -194,20 +195,23 @@ def pr_generate_extended_diff(pr_languages: list,
     for lang in pr_languages:
         for file in lang['files']:
             original_file_content_str = file.base_file
+            new_file_content_str = file.head_file
             patch = file.patch
             if not patch:
                 continue
 
             # extend each patch with extra lines of context
             extended_patch = extend_patch(original_file_content_str, patch,
-                                          patch_extra_lines_before, patch_extra_lines_after, file.filename)
+                                          patch_extra_lines_before, patch_extra_lines_after, file.filename,
+                                          new_file_str=new_file_content_str)
             if not extended_patch:
                 get_logger().warning(f"Failed to extend patch for file: {file.filename}")
                 continue
-            full_extended_patch = f"\n\n## {file.filename}\n{extended_patch.rstrip()}\n"
 
             if add_line_numbers_to_hunks:
                 full_extended_patch = convert_to_hunks_with_lines_numbers(extended_patch, file)
+            else:
+                full_extended_patch = f"\n\n## File: '{file.filename.strip()}'\n{extended_patch.rstrip()}\n"
 
             # add AI-summary metadata to the patch
             if file.ai_file_summary and get_settings().get("config.enable_ai_metadata", False):
@@ -315,13 +319,13 @@ def generate_full_patch(convert_hunks_to_line_numbers, file_dict, max_tokens_mod
             # TODO: Option for alternative logic to remove hunks from the patch to reduce the number of tokens
             #  until we meet the requirements
             if get_settings().config.verbosity_level >= 2:
-                get_logger().warning(f"Patch too large, skipping it, {filename}")
+                get_logger().warning(f"Patch too large, skipping it: '{filename}'")
             remaining_files_list_new.append(filename)
             continue
 
         if patch:
             if not convert_hunks_to_line_numbers:
-                patch_final = f"\n\n## File: '{filename.strip()}\n\n{patch.strip()}\n'"
+                patch_final = f"\n\n## File: '{filename.strip()}'\n\n{patch.strip()}\n"
             else:
                 patch_final = "\n\n" + patch.strip()
             patches.append(patch_final)
@@ -353,8 +357,8 @@ async def retry_with_fallback_models(f: Callable, model_type: ModelType = ModelT
 
 
 def _get_all_models(model_type: ModelType = ModelType.REGULAR) -> List[str]:
-    if model_type == ModelType.TURBO:
+    if model_type == ModelType.WEAK:
-        model = get_settings().config.model_turbo
+        model = get_weak_model()
     else:
         model = get_settings().config.model
     fallback_models = get_settings().config.fallback_models
@@ -382,7 +386,8 @@ def _get_all_deployments(all_models: List[str]) -> List[str]:
 def get_pr_multi_diffs(git_provider: GitProvider,
                        token_handler: TokenHandler,
                        model: str,
-                       max_calls: int = 5) -> List[str]:
+                       max_calls: int = 5,
+                       add_line_numbers: bool = True) -> List[str]:
     """
     Retrieves the diff files from a Git provider, sorts them by main language, and generates patches for each file.
     The patches are split into multiple groups based on the maximum number of tokens allowed for the given model.
@@ -423,7 +428,8 @@ def get_pr_multi_diffs(git_provider: GitProvider,
 
     # try first a single run with standard diff string, with patch extension, and no deletions
     patches_extended, total_tokens, patches_extended_tokens = pr_generate_extended_diff(
-        pr_languages, token_handler, add_line_numbers_to_hunks=True,
+        pr_languages, token_handler,
+        add_line_numbers_to_hunks=add_line_numbers,
         patch_extra_lines_before=PATCH_EXTRA_LINES_BEFORE,
         patch_extra_lines_after=PATCH_EXTRA_LINES_AFTER)
 
@@ -452,7 +458,12 @@ def get_pr_multi_diffs(git_provider: GitProvider,
         if patch is None:
             continue
 
+        # Add line numbers and metadata to the patch
+        if add_line_numbers:
             patch = convert_to_hunks_with_lines_numbers(patch, file)
+        else:
+            patch = f"\n\n## File: '{file.filename.strip()}'\n\n{patch.strip()}\n"
+
         # add AI-summary metadata to the patch
         if file.ai_file_summary and get_settings().get("config.enable_ai_metadata", False):
             patch = add_ai_summary_top_patch(file, patch)

pr_agent/algo/token_handler.py

@@ -1,8 +1,9 @@
-from jinja2 import Environment, StrictUndefined
-from tiktoken import encoding_for_model, get_encoding
-from pr_agent.config_loader import get_settings
 from threading import Lock
 
+from jinja2 import Environment, StrictUndefined
+from tiktoken import encoding_for_model, get_encoding
+
+from pr_agent.config_loader import get_settings
 from pr_agent.log import get_logger
 
 

pr_agent/algo/types.py

@@ -1,5 +1,6 @@
 from dataclasses import dataclass
 from enum import Enum
+from typing import Optional
 
 
 class EDIT_TYPE(Enum):
@@ -21,4 +22,5 @@ class FilePatchInfo:
     old_filename: str = None
     num_plus_lines: int = -1
     num_minus_lines: int = -1
+    language: Optional[str] = None
     ai_file_summary: str = None

pr_agent/algo/utils.py

@@ -7,14 +7,15 @@ import html
 import json
 import os
 import re
+import sys
 import textwrap
 import time
 import traceback
 from datetime import datetime
 from enum import Enum
+from importlib.metadata import PackageNotFoundError, version
 from typing import Any, List, Tuple
 
-
 import html2text
 import requests
 import yaml
@@ -22,11 +23,19 @@ from pydantic import BaseModel
 from starlette_context import context
 
 from pr_agent.algo import MAX_TOKENS
+from pr_agent.algo.git_patch_processing import extract_hunk_lines_from_patch
 from pr_agent.algo.token_handler import TokenEncoder
-from pr_agent.config_loader import get_settings, global_settings
 from pr_agent.algo.types import FilePatchInfo
+from pr_agent.config_loader import get_settings, global_settings
 from pr_agent.log import get_logger
 
+
+def get_weak_model() -> str:
+    if get_settings().get("config.model_weak"):
+        return get_settings().config.model_weak
+    return get_settings().config.model
+
+
 class Range(BaseModel):
     line_start: int  # should be 0-indexed
     line_end: int
@@ -35,13 +44,17 @@ class Range(BaseModel):
 
 class ModelType(str, Enum):
     REGULAR = "regular"
-    TURBO = "turbo"
+    WEAK = "weak"
-
 
 class PRReviewHeader(str, Enum):
     REGULAR = "## PR Reviewer Guide"
     INCREMENTAL = "## Incremental PR Reviewer Guide"
 
+class ReasoningEffort(str, Enum):
+    HIGH = "high"
+    MEDIUM = "medium"
+    LOW = "low"
+
 
 class PRDescriptionHeader(str, Enum):
     CHANGES_WALKTHROUGH = "### **Changes walkthrough** 📝"
@@ -97,7 +110,8 @@ def unique_strings(input_list: List[str]) -> List[str]:
 def convert_to_markdown_v2(output_data: dict,
                            gfm_supported: bool = True,
                            incremental_review=None,
-                           git_provider=None) -> str:
+                           git_provider=None,
+                           files=None) -> str:
     """
     Convert a dictionary of data into markdown format.
     Args:
@@ -173,7 +187,7 @@ def convert_to_markdown_v2(output_data: dict,
                 if is_value_no(value):
                     markdown_text += f'### {emoji} No relevant tests\n\n'
                 else:
-                    markdown_text += f"### PR contains tests\n\n"
+                    markdown_text += f"### {emoji} PR contains tests\n\n"
         elif 'ticket compliance check' in key_nice.lower():
             markdown_text = ticket_markdown_logic(emoji, markdown_text, value, gfm_supported)
         elif 'security concerns' in key_nice.lower():
@@ -221,15 +235,31 @@ def convert_to_markdown_v2(output_data: dict,
                             continue
                         relevant_file = issue.get('relevant_file', '').strip()
                         issue_header = issue.get('issue_header', '').strip()
+                        if issue_header.lower() == 'possible bug':
+                            issue_header = 'Possible Issue'  # Make the header less frightening
                         issue_content = issue.get('issue_content', '').strip()
                         start_line = int(str(issue.get('start_line', 0)).strip())
                         end_line = int(str(issue.get('end_line', 0)).strip())
+
+                        relevant_lines_str = extract_relevant_lines_str(end_line, files, relevant_file, start_line, dedent=True)
+                        if git_provider:
                             reference_link = git_provider.get_line_link(relevant_file, start_line, end_line)
+                        else:
+                            reference_link = None
 
                         if gfm_supported:
+                            if reference_link is not None and len(reference_link) > 0:
+                                if relevant_lines_str:
+                                    issue_str = f"<details><summary><a href='{reference_link}'><strong>{issue_header}</strong></a>\n\n{issue_content}\n</summary>\n\n{relevant_lines_str}\n\n</details>"
+                                else:
                                     issue_str = f"<a href='{reference_link}'><strong>{issue_header}</strong></a><br>{issue_content}"
                             else:
+                                issue_str = f"<strong>{issue_header}</strong><br>{issue_content}"
+                        else:
+                            if reference_link is not None and len(reference_link) > 0:
                                 issue_str = f"[**{issue_header}**]({reference_link})\n\n{issue_content}\n\n"
+                            else:
+                                issue_str = f"**{issue_header}**\n\n{issue_content}\n\n"
                         markdown_text += f"{issue_str}\n\n"
                     except Exception as e:
                         get_logger().exception(f"Failed to process 'Recommended focus areas for review': {e}")
@@ -246,68 +276,143 @@ def convert_to_markdown_v2(output_data: dict,
     if gfm_supported:
         markdown_text += "</table>\n"
 
-    if 'code_feedback' in output_data:
-        if gfm_supported:
-            markdown_text += f"\n\n"
-            markdown_text += f"<details><summary> <strong>Code feedback:</strong></summary>\n\n"
-            markdown_text += "<hr>"
-        else:
-            markdown_text += f"\n\n### Code feedback:\n\n"
-        for i, value in enumerate(output_data['code_feedback']):
-            if value is None or value == '' or value == {} or value == []:
-                continue
-            markdown_text += parse_code_suggestion(value, i, gfm_supported)+"\n\n"
-        if markdown_text.endswith('<hr>'):
-            markdown_text= markdown_text[:-4]
-        if gfm_supported:
-            markdown_text += f"</details>"
-
     return markdown_text
 
 
+def extract_relevant_lines_str(end_line, files, relevant_file, start_line, dedent=False) -> str:
+    """
+    Finds 'relevant_file' in 'files', and extracts the lines from 'start_line' to 'end_line' string from the file content.
+    """
+    try:
+        relevant_lines_str = ""
+        if files:
+            files = set_file_languages(files)
+            for file in files:
+                if file.filename.strip() == relevant_file:
+                    if not file.head_file:
+                        # as a fallback, extract relevant lines directly from patch
+                        patch = file.patch
+                        get_logger().info(f"No content found in file: '{file.filename}' for 'extract_relevant_lines_str'. Using patch instead")
+                        _, selected_lines = extract_hunk_lines_from_patch(patch, file.filename, start_line, end_line,side='right')
+                        if not selected_lines:
+                            get_logger().error(f"Failed to extract relevant lines from patch: {file.filename}")
+                            return ""
+                        # filter out '-' lines
+                        relevant_lines_str = ""
+                        for line in selected_lines.splitlines():
+                            if line.startswith('-'):
+                                continue
+                            relevant_lines_str += line[1:] + '\n'
+                    else:
+                        relevant_file_lines = file.head_file.splitlines()
+                        relevant_lines_str = "\n".join(relevant_file_lines[start_line - 1:end_line])
+
+                    if dedent and relevant_lines_str:
+                        # Remove the longest leading string of spaces and tabs common to all lines.
+                        relevant_lines_str = textwrap.dedent(relevant_lines_str)
+                    relevant_lines_str = f"```{file.language}\n{relevant_lines_str}\n```"
+                    break
+
+        return relevant_lines_str
+    except Exception as e:
+        get_logger().exception(f"Failed to extract relevant lines: {e}")
+        return ""
+
+
 def ticket_markdown_logic(emoji, markdown_text, value, gfm_supported) -> str:
     ticket_compliance_str = ""
-    final_compliance_level = -1
+    compliance_emoji = ''
+    # Track compliance levels across all tickets
+    all_compliance_levels = []
+
     if isinstance(value, list):
-        for v in value:
+        for ticket_analysis in value:
-            ticket_url = v.get('ticket_url', '').strip()
+            try:
-            compliance_level = v.get('overall_compliance_level', '').strip()
+                ticket_url = ticket_analysis.get('ticket_url', '').strip()
-            # add emojis, if 'Fully compliant' ✅, 'Partially compliant' 🔶, or 'Not compliant' ❌
-            if compliance_level.lower() == 'fully compliant':
-                # compliance_level = '✅ Fully compliant'
-                final_compliance_level = 2 if final_compliance_level == -1 else 1
-            elif compliance_level.lower() == 'partially compliant':
-                # compliance_level = '🔶 Partially compliant'
-                final_compliance_level = 1
-            elif compliance_level.lower() == 'not compliant':
-                # compliance_level = '❌ Not compliant'
-                final_compliance_level = 0 if final_compliance_level < 1 else 1
-
-            # explanation = v.get('compliance_analysis', '').strip()
                 explanation = ''
-            fully_compliant_str = v.get('fully_compliant_requirements', '').strip()
+                ticket_compliance_level = ''  # Individual ticket compliance
-            not_compliant_str = v.get('not_compliant_requirements', '').strip()
+                fully_compliant_str = ticket_analysis.get('fully_compliant_requirements', '').strip()
+                not_compliant_str = ticket_analysis.get('not_compliant_requirements', '').strip()
+                requires_further_human_verification = ticket_analysis.get('requires_further_human_verification',
+                                                                          '').strip()
+
+                if not fully_compliant_str and not not_compliant_str:
+                    get_logger().debug(f"Ticket compliance has no requirements",
+                                       artifact={'ticket_url': ticket_url})
+                    continue
+
+                # Calculate individual ticket compliance level
                 if fully_compliant_str:
-                explanation += f"Fully compliant requirements:\n{fully_compliant_str}\n\n"
                     if not_compliant_str:
-                explanation += f"Not compliant requirements:\n{not_compliant_str}\n\n"
+                        ticket_compliance_level = 'Partially compliant'
-
-            ticket_compliance_str += f"\n\n**[{ticket_url.split('/')[-1]}]({ticket_url}) - {compliance_level}**\n\n{explanation}\n\n"
-        if final_compliance_level == 2:
-            compliance_level = '✅'
-        elif final_compliance_level == 1:
-            compliance_level = '🔶'
                     else:
-            compliance_level = '❌'
+                        if not requires_further_human_verification:
+                            ticket_compliance_level = 'Fully compliant'
+                        else:
+                            ticket_compliance_level = 'PR Code Verified'
+                elif not_compliant_str:
+                    ticket_compliance_level = 'Not compliant'
 
+                # Store the compliance level for aggregation
+                if ticket_compliance_level:
+                    all_compliance_levels.append(ticket_compliance_level)
+
+                # build compliance string
+                if fully_compliant_str:
+                    explanation += f"Compliant requirements:\n\n{fully_compliant_str}\n\n"
+                if not_compliant_str:
+                    explanation += f"Non-compliant requirements:\n\n{not_compliant_str}\n\n"
+                if requires_further_human_verification:
+                    explanation += f"Requires further human verification:\n\n{requires_further_human_verification}\n\n"
+                ticket_compliance_str += f"\n\n**[{ticket_url.split('/')[-1]}]({ticket_url}) - {ticket_compliance_level}**\n\n{explanation}\n\n"
+
+                # for debugging
+                if requires_further_human_verification:
+                    get_logger().debug(f"Ticket compliance requires further human verification",
+                                       artifact={'ticket_url': ticket_url,
+                                                 'requires_further_human_verification': requires_further_human_verification,
+                                                 'compliance_level': ticket_compliance_level})
+
+            except Exception as e:
+                get_logger().exception(f"Failed to process ticket compliance: {e}")
+                continue
+
+        # Calculate overall compliance level and emoji
+        if all_compliance_levels:
+            if all(level == 'Fully compliant' for level in all_compliance_levels):
+                compliance_level = 'Fully compliant'
+                compliance_emoji = '✅'
+            elif all(level == 'PR Code Verified' for level in all_compliance_levels):
+                compliance_level = 'PR Code Verified'
+                compliance_emoji = '✅'
+            elif any(level == 'Not compliant' for level in all_compliance_levels):
+                # If there's a mix of compliant and non-compliant tickets
+                if any(level in ['Fully compliant', 'PR Code Verified'] for level in all_compliance_levels):
+                    compliance_level = 'Partially compliant'
+                    compliance_emoji = '🔶'
+                else:
+                    compliance_level = 'Not compliant'
+                    compliance_emoji = '❌'
+            elif any(level == 'Partially compliant' for level in all_compliance_levels):
+                compliance_level = 'Partially compliant'
+                compliance_emoji = '🔶'
+            else:
+                compliance_level = 'PR Code Verified'
+                compliance_emoji = '✅'
+
+            # Set extra statistics outside the ticket loop
+            get_settings().set('config.extra_statistics', {'compliance_level': compliance_level})
+
+        # editing table row for ticket compliance analysis
         if gfm_supported:
             markdown_text += f"<tr><td>\n\n"
-            markdown_text += f"**{emoji} Ticket compliance analysis {compliance_level}**\n\n"
+            markdown_text += f"**{emoji} Ticket compliance analysis {compliance_emoji}**\n\n"
             markdown_text += ticket_compliance_str
             markdown_text += f"</td></tr>\n"
         else:
-            markdown_text += f"### {emoji} Ticket compliance analysis {compliance_level}\n\n"
+            markdown_text += f"### {emoji} Ticket compliance analysis {compliance_emoji}\n\n"
-            markdown_text += ticket_compliance_str+"\n\n"
+            markdown_text += ticket_compliance_str + "\n\n"
+
     return markdown_text
 
 
@@ -534,27 +639,22 @@ def load_large_diff(filename, new_file_content_str: str, original_file_content_s
     """
     Generate a patch for a modified file by comparing the original content of the file with the new content provided as
     input.
-
-    Args:
-        new_file_content_str: The new content of the file as a string.
-        original_file_content_str: The original content of the file as a string.
-
-    Returns:
-        The generated or provided patch string.
-
-    Raises:
-        None.
     """
-    patch = ""
+    if not original_file_content_str and not new_file_content_str:
+        return ""
+
     try:
+        original_file_content_str = (original_file_content_str or "").rstrip() + "\n"
+        new_file_content_str = (new_file_content_str or "").rstrip() + "\n"
         diff = difflib.unified_diff(original_file_content_str.splitlines(keepends=True),
                                     new_file_content_str.splitlines(keepends=True))
         if get_settings().config.verbosity_level >= 2 and show_warning:
-            get_logger().warning(f"File was modified, but no patch was found. Manually creating patch: {filename}.")
+            get_logger().info(f"File was modified, but no patch was found. Manually creating patch: {filename}.")
         patch = ''.join(diff)
-    except Exception:
-        pass
         return patch
+    except Exception as e:
+        get_logger().exception(f"Failed to generate patch for file: {filename}")
+        return ""
 
 
 def update_settings_from_args(args: List[str]) -> List[str]:
@@ -640,7 +740,7 @@ def try_fix_yaml(response_text: str,
         get_logger().info(f"Successfully parsed AI prediction after adding |-\n")
         return data
     except:
-        get_logger().info(f"Failed to parse AI prediction after adding |-\n")
+        pass
 
     # second fallback - try to extract only range from first ```yaml to ````
     snippet_pattern = r'```(yaml)?[\s\S]*?```'
@@ -684,9 +784,19 @@ def try_fix_yaml(response_text: str,
         except:
             pass
 
+    # fifth fallback - try to remove leading '+' (sometimes added by AI for 'existing code' and 'improved code')
+    response_text_lines_copy = response_text_lines.copy()
+    for i in range(0, len(response_text_lines_copy)):
+        if response_text_lines_copy[i].startswith('+'):
+            response_text_lines_copy[i] = ' ' + response_text_lines_copy[i][1:]
+    try:
+        data = yaml.safe_load('\n'.join(response_text_lines_copy))
+        get_logger().info(f"Successfully parsed AI prediction after removing leading '+'")
+        return data
+    except:
+        pass
 
-    # fifth fallback - try to remove last lines
+    # sixth fallback - try to remove last lines
-    data = {}
     for i in range(1, len(response_text_lines)):
         response_text_lines_tmp = '\n'.join(response_text_lines[:-i])
         try:
@@ -1097,3 +1207,48 @@ def process_description(description_full: str) -> Tuple[str, List]:
         get_logger().exception(f"Failed to process description: {e}")
 
     return base_description_str, files
+
+def get_version() -> str:
+    # First check pyproject.toml if running directly out of repository
+    if os.path.exists("pyproject.toml"):
+        if sys.version_info >= (3, 11):
+            import tomllib
+            with open("pyproject.toml", "rb") as f:
+                data = tomllib.load(f)
+                if "project" in data and "version" in data["project"]:
+                    return data["project"]["version"]
+                else:
+                    get_logger().warning("Version not found in pyproject.toml")
+        else:
+            get_logger().warning("Unable to determine local version from pyproject.toml")
+
+    # Otherwise get the installed pip package version
+    try:
+        return version('pr-agent')
+    except PackageNotFoundError:
+        get_logger().warning("Unable to find package named 'pr-agent'")
+        return "unknown"
+
+
+def set_file_languages(diff_files) -> List[FilePatchInfo]:
+    try:
+        # if the language is already set, do not change it
+        if hasattr(diff_files[0], 'language') and diff_files[0].language:
+            return diff_files
+
+        # map file extensions to programming languages
+        language_extension_map_org = get_settings().language_extension_map_org
+        extension_to_language = {}
+        for language, extensions in language_extension_map_org.items():
+            for ext in extensions:
+                extension_to_language[ext] = language
+        for file in diff_files:
+            extension_s = '.' + file.filename.rsplit('.')[-1]
+            language_name = "txt"
+            if extension_s and (extension_s in extension_to_language):
+                language_name = extension_to_language[extension_s]
+            file.language = language_name.lower()
+    except Exception as e:
+        get_logger().exception(f"Failed to set file languages: {e}")
+
+    return diff_files

pr_agent/cli.py

@@ -3,8 +3,9 @@ import asyncio
 import os
 
 from pr_agent.agent.pr_agent import PRAgent, commands
+from pr_agent.algo.utils import get_version
 from pr_agent.config_loader import get_settings
-from pr_agent.log import setup_logger, get_logger
+from pr_agent.log import get_logger, setup_logger
 
 log_level = os.environ.get("LOG_LEVEL", "INFO")
 setup_logger(log_level)
@@ -45,6 +46,7 @@ def set_parser():
     To edit any configuration parameter from 'configuration.toml', just add -config_path=<value>.
     For example: 'python cli.py --pr_url=... review --pr_reviewer.extra_instructions="focus on the file: ..."'
     """)
+    parser.add_argument('--version', action='version', version=f'pr-agent {get_version()}')
     parser.add_argument('--pr_url', type=str, help='The URL of the PR to review', default=None)
     parser.add_argument('--issue_url', type=str, help='The URL of the Issue to review', default=None)
     parser.add_argument('command', type=str, help='The', choices=commands, default='review')

pr_agent/config_loader.py

@@ -12,7 +12,6 @@ global_settings = Dynaconf(
     envvar_prefix=False,
     merge_enabled=True,
     settings_files=[join(current_dir, f) for f in [
-        "settings/.secrets.toml",
         "settings/configuration.toml",
         "settings/ignore.toml",
         "settings/language_extensions.toml",
@@ -29,12 +28,13 @@ global_settings = Dynaconf(
         "settings/pr_add_docs.toml",
         "settings/custom_labels.toml",
         "settings/pr_help_prompts.toml",
+        "settings/.secrets.toml",
         "settings_prod/.secrets.toml",
     ]]
 )
 
 
-def get_settings():
+def get_settings(use_context=False):
     """
     Retrieves the current settings.
 

pr_agent/git_providers/__init__.py

@@ -1,14 +1,16 @@
+from starlette_context import context
+
 from pr_agent.config_loader import get_settings
+from pr_agent.git_providers.azuredevops_provider import AzureDevopsProvider
 from pr_agent.git_providers.bitbucket_provider import BitbucketProvider
-from pr_agent.git_providers.bitbucket_server_provider import BitbucketServerProvider
+from pr_agent.git_providers.bitbucket_server_provider import \
+    BitbucketServerProvider
 from pr_agent.git_providers.codecommit_provider import CodeCommitProvider
+from pr_agent.git_providers.gerrit_provider import GerritProvider
 from pr_agent.git_providers.git_provider import GitProvider
 from pr_agent.git_providers.github_provider import GithubProvider
 from pr_agent.git_providers.gitlab_provider import GitLabProvider
 from pr_agent.git_providers.local_git_provider import LocalGitProvider
-from pr_agent.git_providers.azuredevops_provider import AzureDevopsProvider
-from pr_agent.git_providers.gerrit_provider import GerritProvider
-from starlette_context import context
 
 _GIT_PROVIDERS = {
     'github': GithubProvider,

pr_agent/git_providers/azuredevops_provider.py

@@ -2,33 +2,33 @@ import os
 from typing import Optional, Tuple
 from urllib.parse import urlparse
 
-from ..algo.file_filter import filter_ignored
-from ..log import get_logger
-from ..algo.language_handler import is_valid_file
-from ..algo.utils import clip_tokens, find_line_number_of_relevant_line_in_file, load_large_diff, PRDescriptionHeader
-from ..config_loader import get_settings
-from .git_provider import GitProvider
 from pr_agent.algo.types import EDIT_TYPE, FilePatchInfo
 
+from ..algo.file_filter import filter_ignored
+from ..algo.language_handler import is_valid_file
+from ..algo.utils import (PRDescriptionHeader, clip_tokens,
+                          find_line_number_of_relevant_line_in_file,
+                          load_large_diff)
+from ..config_loader import get_settings
+from ..log import get_logger
+from .git_provider import GitProvider
+
 AZURE_DEVOPS_AVAILABLE = True
 ADO_APP_CLIENT_DEFAULT_ID = "499b84ac-1321-427f-aa17-267ca6975798/.default"
 MAX_PR_DESCRIPTION_AZURE_LENGTH = 4000-1
 
 try:
     # noinspection PyUnresolvedReferences
-    from msrest.authentication import BasicAuthentication
     # noinspection PyUnresolvedReferences
     from azure.devops.connection import Connection
     # noinspection PyUnresolvedReferences
-    from azure.identity import DefaultAzureCredential
+    from azure.devops.v7_1.git.models import (Comment, CommentThread,
-    # noinspection PyUnresolvedReferences
-    from azure.devops.v7_1.git.models import (
-        Comment,
-        CommentThread,
-        GitVersionDescriptor,
                                               GitPullRequest,
                                               GitPullRequestIterationChanges,
-    )
+                                              GitVersionDescriptor)
+    # noinspection PyUnresolvedReferences
+    from azure.identity import DefaultAzureCredential
+    from msrest.authentication import BasicAuthentication
 except ImportError:
     AZURE_DEVOPS_AVAILABLE = False
 
@@ -67,14 +67,12 @@ class AzureDevopsProvider(GitProvider):
             relevant_lines_end = suggestion['relevant_lines_end']
 
             if not relevant_lines_start or relevant_lines_start == -1:
-                if get_settings().config.verbosity_level >= 2:
+                get_logger().warning(
-                    get_logger().exception(
                     f"Failed to publish code suggestion, relevant_lines_start is {relevant_lines_start}")
                 continue
 
             if relevant_lines_end < relevant_lines_start:
-                if get_settings().config.verbosity_level >= 2:
+                get_logger().warning(f"Failed to publish code suggestion, "
-                    get_logger().exception(f"Failed to publish code suggestion, "
                                        f"relevant_lines_end is {relevant_lines_end} and "
                                        f"relevant_lines_start is {relevant_lines_start}")
                 continue
@@ -95,9 +93,11 @@ class AzureDevopsProvider(GitProvider):
                     "side": "RIGHT",
                 }
             post_parameters_list.append(post_parameters)
+        if not post_parameters_list:
+            return False
 
-        try:
         for post_parameters in post_parameters_list:
+            try:
                 comment = Comment(content=post_parameters["body"], comment_type=1)
                 thread = CommentThread(comments=[comment],
                                        thread_context={
@@ -117,15 +117,11 @@ class AzureDevopsProvider(GitProvider):
                     repository_id=self.repo_slug,
                     pull_request_id=self.pr_num
                 )
-                if get_settings().config.verbosity_level >= 2:
-                    get_logger().info(
-                        f"Published code suggestion on {self.pr_num} at {post_parameters['path']}"
-                    )
-            return True
             except Exception as e:
-            if get_settings().config.verbosity_level >= 2:
+                get_logger().warning(f"Azure failed to publish code suggestion, error: {e}")
-                get_logger().error(f"Failed to publish code suggestion, error: {e}")
+        return True
-            return False
+
+
 
     def get_pr_description_full(self) -> str:
         return self.pr.description
@@ -187,6 +183,7 @@ class AzureDevopsProvider(GitProvider):
         return True
 
     def set_pr(self, pr_url: str):
+        self.pr_url = pr_url
         self.workspace_slug, self.repo_slug, self.pr_num = self._parse_pr_url(pr_url)
         self.pr = self._get_pr()
 
@@ -330,13 +327,13 @@ class AzureDevopsProvider(GitProvider):
                     edit_type = EDIT_TYPE.ADDED
                 elif diff_types[file] == "delete":
                     edit_type = EDIT_TYPE.DELETED
-                elif diff_types[file] == "rename":
+                elif "rename" in diff_types[file]: # diff_type can be `rename` | `edit, rename`
                     edit_type = EDIT_TYPE.RENAMED
 
                 version = GitVersionDescriptor(
                     version=base_sha.commit_id, version_type="commit"
                 )
-                if edit_type == EDIT_TYPE.ADDED:
+                if edit_type == EDIT_TYPE.ADDED or edit_type == EDIT_TYPE.RENAMED:
                     original_file_content_str = ""
                 else:
                     try:
@@ -382,6 +379,9 @@ class AzureDevopsProvider(GitProvider):
             return []
 
     def publish_comment(self, pr_comment: str, is_temporary: bool = False, thread_context=None):
+        if is_temporary and not get_settings().config.publish_output_progress:
+            get_logger().debug(f"Skipping publish_comment for temporary comment: {pr_comment}")
+            return None
         comment = Comment(content=pr_comment)
         thread = CommentThread(comments=[comment], thread_context=thread_context, status=5)
         thread_response = self.azure_devops_client.create_thread(
@@ -615,9 +615,11 @@ class AzureDevopsProvider(GitProvider):
             return pr_id
         except Exception as e:
             if get_settings().config.verbosity_level >= 2:
-                get_logger().error(f"Failed to get pr id, error: {e}")
+                get_logger().info(f"Failed to get pr id, error: {e}")
             return ""
 
     def publish_file_comments(self, file_comments: list) -> bool:
         pass
 
+    def get_line_link(self, relevant_file: str, relevant_line_start: int, relevant_line_end: int = None) -> str:
+        return self.pr_url+f"?_a=files&path={relevant_file}"

pr_agent/git_providers/bitbucket_provider.py

@@ -1,4 +1,6 @@
+import difflib
 import json
+import re
 from typing import Optional, Tuple
 from urllib.parse import urlparse
 
@@ -6,13 +8,14 @@ import requests
 from atlassian.bitbucket import Cloud
 from starlette_context import context
 
-from pr_agent.algo.types import FilePatchInfo, EDIT_TYPE
+from pr_agent.algo.types import EDIT_TYPE, FilePatchInfo
+
 from ..algo.file_filter import filter_ignored
 from ..algo.language_handler import is_valid_file
 from ..algo.utils import find_line_number_of_relevant_line_in_file
 from ..config_loader import get_settings
 from ..log import get_logger
-from .git_provider import GitProvider, MAX_FILES_ALLOWED_FULL
+from .git_provider import MAX_FILES_ALLOWED_FULL, GitProvider
 
 
 def _gef_filename(diff):
@@ -71,19 +74,33 @@ class BitbucketProvider(GitProvider):
         post_parameters_list = []
         for suggestion in code_suggestions:
             body = suggestion["body"]
+            original_suggestion = suggestion.get('original_suggestion', None)  # needed for diff code
+            if original_suggestion:
+                try:
+                    existing_code = original_suggestion['existing_code'].rstrip() + "\n"
+                    improved_code = original_suggestion['improved_code'].rstrip() + "\n"
+                    diff = difflib.unified_diff(existing_code.split('\n'),
+                                                improved_code.split('\n'), n=999)
+                    patch_orig = "\n".join(diff)
+                    patch = "\n".join(patch_orig.splitlines()[5:]).strip('\n')
+                    diff_code = f"\n\n```diff\n{patch.rstrip()}\n```"
+                    # replace ```suggestion ... ``` with diff_code, using regex:
+                    body = re.sub(r'```suggestion.*?```', diff_code, body, flags=re.DOTALL)
+                except Exception as e:
+                    get_logger().exception(f"Bitbucket failed to get diff code for publishing, error: {e}")
+                    continue
+
             relevant_file = suggestion["relevant_file"]
             relevant_lines_start = suggestion["relevant_lines_start"]
             relevant_lines_end = suggestion["relevant_lines_end"]
 
             if not relevant_lines_start or relevant_lines_start == -1:
-                if get_settings().config.verbosity_level >= 2:
                 get_logger().exception(
                     f"Failed to publish code suggestion, relevant_lines_start is {relevant_lines_start}"
                 )
                 continue
 
             if relevant_lines_end < relevant_lines_start:
-                if get_settings().config.verbosity_level >= 2:
                 get_logger().exception(
                     f"Failed to publish code suggestion, "
                     f"relevant_lines_end is {relevant_lines_end} and "
@@ -112,8 +129,7 @@ class BitbucketProvider(GitProvider):
             self.publish_inline_comments(post_parameters_list)
             return True
         except Exception as e:
-            if get_settings().config.verbosity_level >= 2:
+            get_logger().error(f"Bitbucket failed to publish code suggestion, error: {e}")
-                get_logger().error(f"Failed to publish code suggestion, error: {e}")
             return False
 
     def publish_file_comments(self, file_comments: list) -> bool:
@@ -309,6 +325,9 @@ class BitbucketProvider(GitProvider):
         self.publish_comment(pr_comment)
 
     def publish_comment(self, pr_comment: str, is_temporary: bool = False):
+        if is_temporary and not get_settings().config.publish_output_progress:
+            get_logger().debug(f"Skipping publish_comment for temporary comment: {pr_comment}")
+            return None
         pr_comment = self.limit_output_characters(pr_comment, self.max_comment_length)
         comment = self.pr.comment(pr_comment)
         if is_temporary:

pr_agent/git_providers/bitbucket_server_provider.py

@@ -1,16 +1,21 @@
-from distutils.version import LooseVersion
+import difflib
-from requests.exceptions import HTTPError
+import re
+
+from packaging.version import parse as parse_version
 from typing import Optional, Tuple
 from urllib.parse import quote_plus, urlparse
 
 from atlassian.bitbucket import Bitbucket
+from requests.exceptions import HTTPError
 
-from .git_provider import GitProvider
+from ..algo.git_patch_processing import decode_if_bytes
-from ..algo.types import EDIT_TYPE, FilePatchInfo
 from ..algo.language_handler import is_valid_file
-from ..algo.utils import load_large_diff, find_line_number_of_relevant_line_in_file
+from ..algo.types import EDIT_TYPE, FilePatchInfo
+from ..algo.utils import (find_line_number_of_relevant_line_in_file,
+                          load_large_diff)
 from ..config_loader import get_settings
 from ..log import get_logger
+from .git_provider import GitProvider
 
 
 class BitbucketServerProvider(GitProvider):
@@ -35,7 +40,7 @@ class BitbucketServerProvider(GitProvider):
                                                               token=get_settings().get("BITBUCKET_SERVER.BEARER_TOKEN",
                                                                                        None))
         try:
-            self.bitbucket_api_version = LooseVersion(self.bitbucket_client.get("rest/api/1.0/application-properties").get('version'))
+            self.bitbucket_api_version = parse_version(self.bitbucket_client.get("rest/api/1.0/application-properties").get('version'))
         except Exception:
             self.bitbucket_api_version = None
 
@@ -65,20 +70,33 @@ class BitbucketServerProvider(GitProvider):
         post_parameters_list = []
         for suggestion in code_suggestions:
             body = suggestion["body"]
+            original_suggestion = suggestion.get('original_suggestion', None)  # needed for diff code
+            if original_suggestion:
+                try:
+                    existing_code = original_suggestion['existing_code'].rstrip() + "\n"
+                    improved_code = original_suggestion['improved_code'].rstrip() + "\n"
+                    diff = difflib.unified_diff(existing_code.split('\n'),
+                                                improved_code.split('\n'), n=999)
+                    patch_orig = "\n".join(diff)
+                    patch = "\n".join(patch_orig.splitlines()[5:]).strip('\n')
+                    diff_code = f"\n\n```diff\n{patch.rstrip()}\n```"
+                    # replace ```suggestion ... ``` with diff_code, using regex:
+                    body = re.sub(r'```suggestion.*?```', diff_code, body, flags=re.DOTALL)
+                except Exception as e:
+                    get_logger().exception(f"Bitbucket failed to get diff code for publishing, error: {e}")
+                    continue
             relevant_file = suggestion["relevant_file"]
             relevant_lines_start = suggestion["relevant_lines_start"]
             relevant_lines_end = suggestion["relevant_lines_end"]
 
             if not relevant_lines_start or relevant_lines_start == -1:
-                if get_settings().config.verbosity_level >= 2:
+                get_logger().warning(
-                    get_logger().exception(
                     f"Failed to publish code suggestion, relevant_lines_start is {relevant_lines_start}"
                 )
                 continue
 
             if relevant_lines_end < relevant_lines_start:
-                if get_settings().config.verbosity_level >= 2:
+                get_logger().warning(
-                    get_logger().exception(
                     f"Failed to publish code suggestion, "
                     f"relevant_lines_end is {relevant_lines_end} and "
                     f"relevant_lines_start is {relevant_lines_start}"
@@ -159,7 +177,7 @@ class BitbucketServerProvider(GitProvider):
         head_sha = self.pr.fromRef['latestCommit']
 
         # if Bitbucket api version is >= 8.16 then use the merge-base api for 2-way diff calculation
-        if self.bitbucket_api_version is not None and self.bitbucket_api_version >= LooseVersion("8.16"):
+        if self.bitbucket_api_version is not None and self.bitbucket_api_version >= parse_version("8.16"):
             try:
                 base_sha = self.bitbucket_client.get(self._get_merge_base())['id']
             except Exception as e:
@@ -174,7 +192,7 @@ class BitbucketServerProvider(GitProvider):
             # if Bitbucket api version is None or < 7.0 then do a simple diff with a guaranteed common ancestor
             base_sha = source_commits_list[-1]['parents'][0]['id']
             # if Bitbucket api version is 7.0-8.15 then use 2-way diff functionality for the base_sha
-            if self.bitbucket_api_version is not None and self.bitbucket_api_version >= LooseVersion("7.0"):
+            if self.bitbucket_api_version is not None and self.bitbucket_api_version >= parse_version("7.0"):
                 try:
                     destination_commits = list(
                         self.bitbucket_client.get_commits(self.workspace_slug, self.repo_slug, base_sha,
@@ -200,27 +218,23 @@ class BitbucketServerProvider(GitProvider):
                 case 'ADD':
                     edit_type = EDIT_TYPE.ADDED
                     new_file_content_str = self.get_file(file_path, head_sha)
-                    if isinstance(new_file_content_str, (bytes, bytearray)):
+                    new_file_content_str = decode_if_bytes(new_file_content_str)
-                        new_file_content_str = new_file_content_str.decode("utf-8")
                     original_file_content_str = ""
                 case 'DELETE':
                     edit_type = EDIT_TYPE.DELETED
                     new_file_content_str = ""
                     original_file_content_str = self.get_file(file_path, base_sha)
-                    if isinstance(original_file_content_str, (bytes, bytearray)):
+                    original_file_content_str = decode_if_bytes(original_file_content_str)
-                        original_file_content_str = original_file_content_str.decode("utf-8")
                 case 'RENAME':
                     edit_type = EDIT_TYPE.RENAMED
                 case _:
                     edit_type = EDIT_TYPE.MODIFIED
                     original_file_content_str = self.get_file(file_path, base_sha)
-                    if isinstance(original_file_content_str, (bytes, bytearray)):
+                    original_file_content_str = decode_if_bytes(original_file_content_str)
-                        original_file_content_str = original_file_content_str.decode("utf-8")
                     new_file_content_str = self.get_file(file_path, head_sha)
-                    if isinstance(new_file_content_str, (bytes, bytearray)):
+                    new_file_content_str = decode_if_bytes(new_file_content_str)
-                        new_file_content_str = new_file_content_str.decode("utf-8")
 
-            patch = load_large_diff(file_path, new_file_content_str, original_file_content_str)
+            patch = load_large_diff(file_path, new_file_content_str, original_file_content_str, show_warning=False)
 
             diff_files.append(
                 FilePatchInfo(
@@ -388,10 +402,21 @@ class BitbucketServerProvider(GitProvider):
 
         try:
             projects_index = path_parts.index("projects")
-        except ValueError as e:
+        except ValueError:
+            projects_index = -1
+
+        try:
+            users_index = path_parts.index("users")
+        except ValueError:
+            users_index = -1
+
+        if projects_index == -1 and users_index == -1:
             raise ValueError(f"The provided URL '{pr_url}' does not appear to be a Bitbucket PR URL")
 
+        if projects_index != -1:
             path_parts = path_parts[projects_index:]
+        else:
+            path_parts = path_parts[users_index:]
 
         if len(path_parts) < 6 or path_parts[2] != "repos" or path_parts[4] != "pull-requests":
             raise ValueError(
@@ -399,6 +424,8 @@ class BitbucketServerProvider(GitProvider):
             )
 
         workspace_slug = path_parts[1]
+        if users_index != -1:
+            workspace_slug = f"~{workspace_slug}"
         repo_slug = path_parts[3]
         try:
             pr_number = int(path_parts[5])

pr_agent/git_providers/codecommit_provider.py

@@ -4,13 +4,15 @@ from collections import Counter
 from typing import List, Optional, Tuple
 from urllib.parse import urlparse
 
-from pr_agent.git_providers.codecommit_client import CodeCommitClient
+from pr_agent.algo.language_handler import is_valid_file
 from pr_agent.algo.types import EDIT_TYPE, FilePatchInfo
+from pr_agent.git_providers.codecommit_client import CodeCommitClient
+
 from ..algo.utils import load_large_diff
-from .git_provider import GitProvider
 from ..config_loader import get_settings
 from ..log import get_logger
-from pr_agent.algo.language_handler import is_valid_file
+from .git_provider import GitProvider
+
 
 class PullRequestCCMimic:
     """

pr_agent/git_providers/gerrit_provider.py

@@ -12,9 +12,9 @@ import requests
 import urllib3.util
 from git import Repo
 
+from pr_agent.algo.types import EDIT_TYPE, FilePatchInfo
 from pr_agent.config_loader import get_settings
 from pr_agent.git_providers.git_provider import GitProvider
-from pr_agent.algo.types import EDIT_TYPE, FilePatchInfo
 from pr_agent.git_providers.local_git_provider import PullRequestMimic
 from pr_agent.log import get_logger
 

pr_agent/git_providers/git_provider.py

@@ -1,12 +1,12 @@
 from abc import ABC, abstractmethod
-
 # enum EDIT_TYPE (ADDED, DELETED, MODIFIED, RENAMED)
 from typing import Optional
 
+from pr_agent.algo.types import FilePatchInfo
 from pr_agent.algo.utils import Range, process_description
 from pr_agent.config_loader import get_settings
-from pr_agent.algo.types import FilePatchInfo
 from pr_agent.log import get_logger
+
 MAX_FILES_ALLOWED_FULL = 50
 
 class GitProvider(ABC):
@@ -62,8 +62,8 @@ class GitProvider(ABC):
         pass
 
     def get_pr_description(self, full: bool = True, split_changes_walkthrough=False) -> str or tuple:
-        from pr_agent.config_loader import get_settings
         from pr_agent.algo.utils import clip_tokens
+        from pr_agent.config_loader import get_settings
         max_tokens_description = get_settings().get("CONFIG.MAX_DESCRIPTION_TOKENS", None)
         description = self.get_pr_description_full() if full else self.get_user_description()
         if split_changes_walkthrough:

pr_agent/git_providers/github_provider.py

@@ -1,22 +1,31 @@
-import itertools
+import copy
-import time
+import difflib
 import hashlib
+import itertools
+import re
+import time
 import traceback
+import json
 from datetime import datetime
 from typing import Optional, Tuple
 from urllib.parse import urlparse
-from github import AppAuthentication, Auth, Github
+
+from github import AppAuthentication, Auth, Github, GithubException
 from retry import retry
 from starlette_context import context
 
 from ..algo.file_filter import filter_ignored
+from ..algo.git_patch_processing import extract_hunk_headers
 from ..algo.language_handler import is_valid_file
 from ..algo.types import EDIT_TYPE
-from ..algo.utils import PRReviewHeader, load_large_diff, clip_tokens, find_line_number_of_relevant_line_in_file, Range
+from ..algo.utils import (PRReviewHeader, Range, clip_tokens,
+                          find_line_number_of_relevant_line_in_file,
+                          load_large_diff, set_file_languages)
 from ..config_loader import get_settings
 from ..log import get_logger
 from ..servers.utils import RateLimitExceeded
-from .git_provider import FilePatchInfo, GitProvider, IncrementalPR, MAX_FILES_ALLOWED_FULL
+from .git_provider import (MAX_FILES_ALLOWED_FULL, FilePatchInfo, GitProvider,
+                           IncrementalPR)
 
 
 class GithubProvider(GitProvider):
@@ -166,6 +175,24 @@ class GithubProvider(GitProvider):
 
             diff_files = []
             invalid_files_names = []
+            is_close_to_rate_limit = False
+
+            # The base.sha will point to the current state of the base branch (including parallel merges), not the original base commit when the PR was created
+            # We can fix this by finding the merge base commit between the PR head and base branches
+            # Note that The pr.head.sha is actually correct as is - it points to the latest commit in your PR branch.
+            # This SHA isn't affected by parallel merges to the base branch since it's specific to your PR's branch.
+            repo = self.repo_obj
+            pr = self.pr
+            try:
+                compare = repo.compare(pr.base.sha, pr.head.sha) # communication with GitHub
+                merge_base_commit = compare.merge_base_commit
+            except Exception as e:
+                get_logger().error(f"Failed to get merge base commit: {e}")
+                merge_base_commit = pr.base
+            if merge_base_commit.sha != pr.base.sha:
+                get_logger().info(
+                    f"Using merge base commit {merge_base_commit.sha} instead of base commit ")
+
             counter_valid = 0
             for file in files:
                 if not is_valid_file(file.filename):
@@ -173,7 +200,10 @@ class GithubProvider(GitProvider):
                     continue
 
                 patch = file.patch
-
+                if is_close_to_rate_limit:
+                    new_file_content_str = ""
+                    original_file_content_str = ""
+                else:
                     # allow only a limited number of files to be fully loaded. We can manage the rest with diffs only
                     counter_valid += 1
                     avoid_load = False
@@ -195,10 +225,12 @@ class GithubProvider(GitProvider):
                         if avoid_load:
                             original_file_content_str = ""
                         else:
-                        original_file_content_str = self._get_pr_file_content(file, self.pr.base.sha)
+                            original_file_content_str = self._get_pr_file_content(file, merge_base_commit.sha)
+                            # original_file_content_str = self._get_pr_file_content(file, self.pr.base.sha)
                         if not patch:
                             patch = load_large_diff(file.filename, new_file_content_str, original_file_content_str)
 
+
                 if file.status == 'added':
                     edit_type = EDIT_TYPE.ADDED
                 elif file.status == 'removed':
@@ -212,9 +244,14 @@ class GithubProvider(GitProvider):
                     edit_type = EDIT_TYPE.UNKNOWN
 
                 # count number of lines added and removed
+                if hasattr(file, 'additions') and hasattr(file, 'deletions'):
+                    num_plus_lines = file.additions
+                    num_minus_lines = file.deletions
+                else:
                     patch_lines = patch.splitlines(keepends=True)
                     num_plus_lines = len([line for line in patch_lines if line.startswith('+')])
                     num_minus_lines = len([line for line in patch_lines if line.startswith('-')])
+
                 file_patch_canonical_structure = FilePatchInfo(original_file_content_str, new_file_content_str, patch,
                                                                file.filename, edit_type=edit_type,
                                                                num_plus_lines=num_plus_lines,
@@ -279,7 +316,6 @@ class GithubProvider(GitProvider):
                                                                                 relevant_line_in_file,
                                                                                 absolute_position)
         if position == -1:
-            if get_settings().config.verbosity_level >= 2:
             get_logger().info(f"Could not find position for {relevant_file} {relevant_line_in_file}")
             subject_type = "FILE"
         else:
@@ -292,11 +328,9 @@ class GithubProvider(GitProvider):
             # publish all comments in a single message
             self.pr.create_review(commit=self.last_commit_id, comments=comments)
         except Exception as e:
-            if get_settings().config.verbosity_level >= 2:
+            get_logger().info(f"Initially failed to publish inline comments as committable")
-                get_logger().error(f"Failed to publish inline comments")
 
-            if (getattr(e, "status", None) == 422
+            if (getattr(e, "status", None) == 422 and not disable_fallback):
-                    and get_settings().github.publish_inline_comments_fallback_with_verification and not disable_fallback):
                 pass  # continue to try _publish_inline_comments_fallback_with_verification
             else:
                 raise e # will end up with publishing the comments one by one
@@ -304,7 +338,6 @@ class GithubProvider(GitProvider):
             try:
                 self._publish_inline_comments_fallback_with_verification(comments)
             except Exception as e:
-                if get_settings().config.verbosity_level >= 2:
                 get_logger().error(f"Failed to publish inline code comments fallback, error: {e}")
                 raise e
 
@@ -330,10 +363,8 @@ class GithubProvider(GitProvider):
             for comment in fixed_comments_as_one_liner:
                 try:
                     self.publish_inline_comments([comment], disable_fallback=True)
-                    if get_settings().config.verbosity_level >= 2:
                     get_logger().info(f"Published invalid comment as a single line comment: {comment}")
                 except:
-                    if get_settings().config.verbosity_level >= 2:
                     get_logger().error(f"Failed to publish invalid comment as a single line comment: {comment}")
 
     def _verify_code_comment(self, comment: dict):
@@ -392,7 +423,6 @@ class GithubProvider(GitProvider):
                 if fixed_comment != comment:
                     fixed_comments.append(fixed_comment)
             except Exception as e:
-                if get_settings().config.verbosity_level >= 2:
                 get_logger().error(f"Failed to fix inline comment, error: {e}")
         return fixed_comments
 
@@ -401,20 +431,21 @@ class GithubProvider(GitProvider):
         Publishes code suggestions as comments on the PR.
         """
         post_parameters_list = []
-        for suggestion in code_suggestions:
+
+        code_suggestions_validated = self.validate_comments_inside_hunks(code_suggestions)
+
+        for suggestion in code_suggestions_validated:
             body = suggestion['body']
             relevant_file = suggestion['relevant_file']
             relevant_lines_start = suggestion['relevant_lines_start']
             relevant_lines_end = suggestion['relevant_lines_end']
 
             if not relevant_lines_start or relevant_lines_start == -1:
-                if get_settings().config.verbosity_level >= 2:
                 get_logger().exception(
                     f"Failed to publish code suggestion, relevant_lines_start is {relevant_lines_start}")
                 continue
 
             if relevant_lines_end < relevant_lines_start:
-                if get_settings().config.verbosity_level >= 2:
                 get_logger().exception(f"Failed to publish code suggestion, "
                                   f"relevant_lines_end is {relevant_lines_end} and "
                                   f"relevant_lines_start is {relevant_lines_start}")
@@ -441,13 +472,21 @@ class GithubProvider(GitProvider):
             self.publish_inline_comments(post_parameters_list)
             return True
         except Exception as e:
-            if get_settings().config.verbosity_level >= 2:
             get_logger().error(f"Failed to publish code suggestion, error: {e}")
             return False
 
     def edit_comment(self, comment, body: str):
+        try:
             body = self.limit_output_characters(body, self.max_comment_chars)
             comment.edit(body=body)
+        except GithubException as e:
+            if hasattr(e, "status") and e.status == 403:
+                # Log as warning for permission-related issues (usually due to polling)
+                get_logger().warning(
+                    "Failed to edit github comment due to permission restrictions",
+                    artifact={"error": e})
+            else:
+                get_logger().exception(f"Failed to edit github comment", artifact={"error": e})
 
     def edit_comment_from_comment_id(self, comment_id: int, body: str):
         try:
@@ -501,6 +540,7 @@ class GithubProvider(GitProvider):
                     elif self.deployment_type == 'user':
                         same_comment_creator = self.github_user_id == existing_comment['user']['login']
                     if existing_comment['subject_type'] == 'file' and comment['path'] == existing_comment['path'] and same_comment_creator:
+
                         headers, data_patch = self.pr._requester.requestJsonAndCheck(
                             "PATCH", f"{self.base_url}/repos/{self.repo}/pulls/comments/{existing_comment['id']}", input={"body":comment['body']}
                         )
@@ -512,7 +552,6 @@ class GithubProvider(GitProvider):
                     )
             return True
         except Exception as e:
-            if get_settings().config.verbosity_level >= 2:
             get_logger().error(f"Failed to publish diffview file summary, error: {e}")
             return False
 
@@ -801,7 +840,6 @@ class GithubProvider(GitProvider):
                 link = f"{self.base_url_html}/{self.repo}/pull/{self.pr_num}/files#diff-{sha_file}R{absolute_position}"
                 return link
         except Exception as e:
-            if get_settings().config.verbosity_level >= 2:
             get_logger().info(f"Failed adding line link, error: {e}")
 
         return ""
@@ -850,6 +888,84 @@ class GithubProvider(GitProvider):
         except:
             return ""
 
+    def fetch_sub_issues(self, issue_url):
+        """
+        Fetch sub-issues linked to the given GitHub issue URL using GraphQL via PyGitHub.
+        """
+        sub_issues = set()
+
+        # Extract owner, repo, and issue number from URL
+        parts = issue_url.rstrip("/").split("/")
+        owner, repo, issue_number = parts[-4], parts[-3], parts[-1]
+
+        try:
+            # Gets Issue ID from Issue Number
+            query = f"""
+            query {{
+                repository(owner: "{owner}", name: "{repo}") {{
+                    issue(number: {issue_number}) {{
+                        id
+                    }}
+                }}
+            }}
+            """
+            response_tuple = self.github_client._Github__requester.requestJson("POST", "/graphql",
+                                                                               input={"query": query})
+
+            # Extract the JSON response from the tuple and parses it
+            if isinstance(response_tuple, tuple) and len(response_tuple) == 3:
+                response_json = json.loads(response_tuple[2])
+            else:
+                get_logger().error(f"Unexpected response format: {response_tuple}")
+                return sub_issues
+
+
+            issue_id = response_json.get("data", {}).get("repository", {}).get("issue", {}).get("id")
+
+            if not issue_id:
+                get_logger().warning(f"Issue ID not found for {issue_url}")
+                return sub_issues
+
+            # Fetch Sub-Issues
+            sub_issues_query = f"""
+            query {{
+                node(id: "{issue_id}") {{
+                    ... on Issue {{
+                        subIssues(first: 10) {{
+                            nodes {{
+                                url
+                            }}
+                        }}
+                    }}
+                }}
+            }}
+            """
+            sub_issues_response_tuple = self.github_client._Github__requester.requestJson("POST", "/graphql", input={
+                "query": sub_issues_query})
+
+            # Extract the JSON response from the tuple and parses it
+            if isinstance(sub_issues_response_tuple, tuple) and len(sub_issues_response_tuple) == 3:
+                sub_issues_response_json = json.loads(sub_issues_response_tuple[2])
+            else:
+                get_logger().error("Unexpected sub-issues response format", artifact={"response": sub_issues_response_tuple})
+                return sub_issues
+
+            if not sub_issues_response_json.get("data", {}).get("node", {}).get("subIssues"):
+                get_logger().error("Invalid sub-issues response structure")
+                return sub_issues
+    
+            nodes = sub_issues_response_json.get("data", {}).get("node", {}).get("subIssues", {}).get("nodes", [])
+            get_logger().info(f"Github Sub-issues fetched: {len(nodes)}", artifact={"nodes": nodes})
+
+            for sub_issue in nodes:
+                if "url" in sub_issue:
+                    sub_issues.add(sub_issue["url"])
+
+        except Exception as e:
+            get_logger().exception(f"Failed to fetch sub-issues. Error: {e}")
+
+        return sub_issues
+
     def auto_approve(self) -> bool:
         try:
             res = self.pr.create_review(event="APPROVE")
@@ -862,3 +978,89 @@ class GithubProvider(GitProvider):
 
     def calc_pr_statistics(self, pull_request_data: dict):
             return {}
+
+    def validate_comments_inside_hunks(self, code_suggestions):
+        """
+        validate that all committable comments are inside PR hunks - this is a must for committable comments in GitHub
+        """
+        code_suggestions_copy = copy.deepcopy(code_suggestions)
+        diff_files = self.get_diff_files()
+        RE_HUNK_HEADER = re.compile(
+            r"^@@ -(\d+)(?:,(\d+))? \+(\d+)(?:,(\d+))? @@[ ]?(.*)")
+
+        diff_files = set_file_languages(diff_files)
+
+        for suggestion in code_suggestions_copy:
+            try:
+                relevant_file_path = suggestion['relevant_file']
+                for file in diff_files:
+                    if file.filename == relevant_file_path:
+
+                        # generate on-demand the patches range for the relevant file
+                        patch_str = file.patch
+                        if not hasattr(file, 'patches_range'):
+                            file.patches_range = []
+                            patch_lines = patch_str.splitlines()
+                            for i, line in enumerate(patch_lines):
+                                if line.startswith('@@'):
+                                    match = RE_HUNK_HEADER.match(line)
+                                    # identify hunk header
+                                    if match:
+                                        section_header, size1, size2, start1, start2 = extract_hunk_headers(match)
+                                        file.patches_range.append({'start': start2, 'end': start2 + size2 - 1})
+
+                        patches_range = file.patches_range
+                        comment_start_line = suggestion.get('relevant_lines_start', None)
+                        comment_end_line = suggestion.get('relevant_lines_end', None)
+                        original_suggestion = suggestion.get('original_suggestion', None) # needed for diff code
+                        if not comment_start_line or not comment_end_line or not original_suggestion:
+                            continue
+
+                        # check if the comment is inside a valid hunk
+                        is_valid_hunk = False
+                        min_distance = float('inf')
+                        patch_range_min = None
+                        # find the hunk that contains the comment, or the closest one
+                        for i, patch_range in enumerate(patches_range):
+                            d1 = comment_start_line - patch_range['start']
+                            d2 = patch_range['end'] - comment_end_line
+                            if d1 >= 0 and d2 >= 0:  # found a valid hunk
+                                is_valid_hunk = True
+                                min_distance = 0
+                                patch_range_min = patch_range
+                                break
+                            elif d1 * d2 <= 0:  # comment is possibly inside the hunk
+                                d1_clip = abs(min(0, d1))
+                                d2_clip = abs(min(0, d2))
+                                d = max(d1_clip, d2_clip)
+                                if d < min_distance:
+                                    patch_range_min = patch_range
+                                    min_distance = min(min_distance, d)
+                        if not is_valid_hunk:
+                            if min_distance < 10:  # 10 lines - a reasonable distance to consider the comment inside the hunk
+                                # make the suggestion non-committable, yet multi line
+                                suggestion['relevant_lines_start'] = max(suggestion['relevant_lines_start'], patch_range_min['start'])
+                                suggestion['relevant_lines_end'] = min(suggestion['relevant_lines_end'], patch_range_min['end'])
+                                body = suggestion['body'].strip()
+
+                                # present new diff code in collapsible
+                                existing_code = original_suggestion['existing_code'].rstrip() + "\n"
+                                improved_code = original_suggestion['improved_code'].rstrip() + "\n"
+                                diff = difflib.unified_diff(existing_code.split('\n'),
+                                                            improved_code.split('\n'), n=999)
+                                patch_orig = "\n".join(diff)
+                                patch = "\n".join(patch_orig.splitlines()[5:]).strip('\n')
+                                diff_code = f"\n\n<details><summary>New proposed code:</summary>\n\n```diff\n{patch.rstrip()}\n```"
+                                # replace ```suggestion ... ``` with diff_code, using regex:
+                                body = re.sub(r'```suggestion.*?```', diff_code, body, flags=re.DOTALL)
+                                body += "\n\n</details>"
+                                suggestion['body'] = body
+                                get_logger().info(f"Comment was moved to a valid hunk, "
+                                                  f"start_line={suggestion['relevant_lines_start']}, end_line={suggestion['relevant_lines_end']}, file={file.filename}")
+                            else:
+                                get_logger().error(f"Comment is not inside a valid hunk, "
+                                                   f"start_line={suggestion['relevant_lines_start']}, end_line={suggestion['relevant_lines_end']}, file={file.filename}")
+            except Exception as e:
+                get_logger().error(f"Failed to process patch for committable comment, error: {e}")
+        return code_suggestions_copy
+

pr_agent/git_providers/gitlab_provider.py

@@ -1,3 +1,4 @@
+import difflib
 import hashlib
 import re
 from typing import Optional, Tuple
@@ -7,13 +8,16 @@ import gitlab
 import requests
 from gitlab import GitlabGetError
 
+from pr_agent.algo.types import EDIT_TYPE, FilePatchInfo
+
 from ..algo.file_filter import filter_ignored
 from ..algo.language_handler import is_valid_file
-from ..algo.utils import load_large_diff, clip_tokens, find_line_number_of_relevant_line_in_file
+from ..algo.utils import (clip_tokens,
+                          find_line_number_of_relevant_line_in_file,
+                          load_large_diff)
 from ..config_loader import get_settings
-from .git_provider import GitProvider, MAX_FILES_ALLOWED_FULL
-from pr_agent.algo.types import EDIT_TYPE, FilePatchInfo
 from ..log import get_logger
+from .git_provider import MAX_FILES_ALLOWED_FULL, GitProvider
 
 
 class DiffNotFoundError(Exception):
@@ -177,7 +181,13 @@ class GitLabProvider(GitProvider):
             get_logger().exception(f"Could not update merge request {self.id_mr} description: {e}")
 
     def get_latest_commit_url(self):
+        try:
             return self.mr.commits().next().web_url
+        except StopIteration: # no commits
+            return ""
+        except Exception as e:
+            get_logger().exception(f"Could not get latest commit URL: {e}")
+            return ""
 
     def get_comment_url(self, comment):
         return f"{self.mr.web_url}#note_{comment.id}"
@@ -190,6 +200,9 @@ class GitLabProvider(GitProvider):
         self.publish_persistent_comment_full(pr_comment, initial_header, update_header, name, final_update_message)
 
     def publish_comment(self, mr_comment: str, is_temporary: bool = False):
+        if is_temporary and not get_settings().config.publish_output_progress:
+            get_logger().debug(f"Skipping publish_comment for temporary comment: {mr_comment}")
+            return None
         mr_comment = self.limit_output_characters(mr_comment, self.max_comment_chars)
         comment = self.mr.notes.create({'body': mr_comment})
         if is_temporary:
@@ -275,20 +288,23 @@ class GitLabProvider(GitProvider):
                         new_code_snippet = original_suggestion['improved_code']
                         content = original_suggestion['suggestion_content']
                         label = original_suggestion['label']
-                        if 'score' in original_suggestion:
+                        score = original_suggestion.get('score', 7)
-                            score = original_suggestion['score']
-                        else:
-                            score = 7
 
                     if hasattr(self, 'main_language'):
                         language = self.main_language
                     else:
                         language = ''
                     link = self.get_line_link(relevant_file, line_start, line_end)
-                    body_fallback =f"**Suggestion:** {content} [{label}, importance: {score}]\n___\n"
+                    body_fallback =f"**Suggestion:** {content} [{label}, importance: {score}]\n\n"
-                    body_fallback +=f"\n\nReplace  lines ([{line_start}-{line_end}]({link}))\n\n```{language}\n{old_code_snippet}\n````\n\n"
+                    body_fallback +=f"\n\n<details><summary>[{target_file.filename} [{line_start}-{line_end}]]({link}):</summary>\n\n"
-                    body_fallback +=f"with\n\n```{language}\n{new_code_snippet}\n````"
+                    body_fallback += f"\n\n___\n\n`(Cannot implement directly - GitLab API allows committable suggestions strictly on MR diff lines)`"
-                    body_fallback += f"\n\n___\n\n`(Cannot implement this suggestion directly, as gitlab API does not enable committing to a non -+ line in a PR)`"
+                    body_fallback+="</details>\n\n"
+                    diff_patch = difflib.unified_diff(old_code_snippet.split('\n'),
+                                                new_code_snippet.split('\n'), n=999)
+                    patch_orig = "\n".join(diff_patch)
+                    patch = "\n".join(patch_orig.splitlines()[5:]).strip('\n')
+                    diff_code = f"\n\n```diff\n{patch.rstrip()}\n```"
+                    body_fallback += diff_code
 
                     # Create a general note on the file in the MR
                     self.mr.notes.create({
@@ -301,6 +317,7 @@ class GitLabProvider(GitProvider):
                             'file_path': f'{target_file.filename}',
                         }
                     })
+                    get_logger().debug(f"Created fallback comment in MR {self.id_mr} with position {pos_obj}")
 
                     # get_logger().debug(
                     #     f"Failed to create comment in MR {self.id_mr} with position {pos_obj} (probably not a '+' line)")

pr_agent/git_providers/local_git_provider.py

@@ -4,9 +4,9 @@ from typing import List
 
 from git import Repo
 
+from pr_agent.algo.types import EDIT_TYPE, FilePatchInfo
 from pr_agent.config_loader import _find_repository_root, get_settings
 from pr_agent.git_providers.git_provider import GitProvider
-from pr_agent.algo.types import EDIT_TYPE, FilePatchInfo
 from pr_agent.log import get_logger
 
 
@@ -141,6 +141,18 @@ class LocalGitProvider(GitProvider):
     def remove_comment(self, comment):
         pass  # Not applicable to the local git provider, but required by the interface
 
+    def add_eyes_reaction(self, comment):
+        pass  # Not applicable to the local git provider, but required by the interface
+
+    def get_commit_messages(self):
+        pass  # Not applicable to the local git provider, but required by the interface
+
+    def get_repo_settings(self):
+        pass  # Not applicable to the local git provider, but required by the interface
+
+    def remove_reaction(self, comment):
+        pass  # Not applicable to the local git provider, but required by the interface
+
     def get_languages(self):
         """
         Calculate percentage of languages in repository. Used for hunk prioritisation.

pr_agent/git_providers/utils.py

@@ -3,11 +3,12 @@ import os
 import tempfile
 
 from dynaconf import Dynaconf
+from starlette_context import context
 
 from pr_agent.config_loader import get_settings
-from pr_agent.git_providers import get_git_provider, get_git_provider_with_context
+from pr_agent.git_providers import (get_git_provider,
+                                    get_git_provider_with_context)
 from pr_agent.log import get_logger
-from starlette_context import context
 
 
 def apply_repo_settings(pr_url):
@@ -98,5 +99,5 @@ def set_claude_model():
     """
     model_claude = "bedrock/anthropic.claude-3-5-sonnet-20240620-v1:0"
     get_settings().set('config.model', model_claude)
-    get_settings().set('config.model_turbo', model_claude)
+    get_settings().set('config.model_weak', model_claude)
     get_settings().set('config.fallback_models', [model_claude])

pr_agent/identity_providers/__init__.py

@@ -1,5 +1,6 @@
 from pr_agent.config_loader import get_settings
-from pr_agent.identity_providers.default_identity_provider import DefaultIdentityProvider
+from pr_agent.identity_providers.default_identity_provider import \
+    DefaultIdentityProvider
 
 _IDENTITY_PROVIDERS = {
     'default': DefaultIdentityProvider

pr_agent/identity_providers/default_identity_provider.py

@@ -1,4 +1,5 @@
-from pr_agent.identity_providers.identity_provider import Eligibility, IdentityProvider
+from pr_agent.identity_providers.identity_provider import (Eligibility,
+                                                           IdentityProvider)
 
 
 class DefaultIdentityProvider(IdentityProvider):