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Summary of ChangesHello, I'm Gemini Code Assist1! I'm currently reviewing this pull request and will post my feedback shortly. In the meantime, here's a summary to help you and other reviewers quickly get up to speed! This pull request focuses on improving the project's documentation and initial user experience. The primary goal was to clean up the Highlights
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📝 WalkthroughWalkthroughThis PR simplifies the README to prioritize external documentation, adds a concise Quick Start, and introduces documentation for a new Changes
Sequence Diagram(s)(omitted — changes are documentation additions only) Estimated code review effort🎯 2 (Simple) | ⏱️ ~10 minutes Possibly related PRs
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Pull request overview
This PR addresses Issue #4 by reducing duplication in README.md and shifting detailed usage/reference material into the MkDocs documentation, including adding a new “Slide” section.
Changes:
- Simplified
README.mdto focus on badges, high-level features, installation, and a minimal quick start pointing to full docs. - Added Slide reference documentation page and linked it in the MkDocs navigation.
- Extended the Quick Start docs with a
client.slide.heatmapsection and signature/parameter descriptions.
Reviewed changes
Copilot reviewed 4 out of 4 changed files in this pull request and generated 1 comment.
| File | Description |
|---|---|
| mkdocs.yml | Adds the new Slide reference page to the docs navigation. |
| docs/reference/resources/slide.md | Introduces mkdocstrings-based API reference entries for Slide and AsyncSlide. |
| docs/learn/get-started/quick-start.md | Adds a Slide subsection documenting client.slide.heatmap. |
| README.md | Removes duplicated API reference content and points readers to the hosted documentation. |
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| ### Slide | ||
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The quick-start page now includes a new “Slide” section, but earlier in this same document the list of exposed resources only mentions client.models and client.qc. To keep the page internally consistent (and help readers discover the new API), please update that earlier list to include client.slide as well.
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Caution
Some comments are outside the diff and can’t be posted inline due to platform limitations.
⚠️ Outside diff range comments (1)
docs/learn/get-started/quick-start.md (1)
10-14:⚠️ Potential issue | 🟡 MinorUpdate the resource overview to include
client.slide.The new Slide resource is documented below but not listed in the high-level resources overview, creating an inconsistency.
📝 Suggested fix
Both clients expose the same high-level resources: - `client.models` for image classification/segmentation - `client.qc` for quality control endpoints +- `client.slide` for whole-slide image processing🤖 Prompt for AI Agents
Verify each finding against the current code and only fix it if needed. In `@docs/learn/get-started/quick-start.md` around lines 10 - 14, The resource overview is missing the new Slide resource; update the high-level resources list (the same block that currently mentions client.models and client.qc) to also include `client.slide` with a short descriptor (e.g., for slide-related endpoints), so the overview matches the detailed documentation below and lists `client.models`, `client.qc`, and `client.slide`.
🧹 Nitpick comments (1)
README.md (1)
13-18: Consider mentioning Slide/heatmap functionality in Features.Given this PR adds documentation for the
client.slide.heatmapAPI, you may want to include it in the Features list for completeness:## Features - **Image Analysis**: Classify and segment pathology images (WSI patches) using deployed models. - **Quality Control**: Automated QC workflows for Whole Slide Images (WSI). +- **Slide Processing**: Generate heatmaps from whole-slide images. - **Concurrency**: Built-in async support for high-throughput processing. - **Efficiency**: Optimized data transfer with LZ4 compression.🤖 Prompt for AI Agents
Verify each finding against the current code and only fix it if needed. In `@README.md` around lines 13 - 18, Add a new bullet to the Features list noting the slide heatmap functionality introduced by the PR: mention the client.slide.heatmap API (e.g., "Slide heatmaps: Generate overlay heatmaps for whole-slide images via client.slide.heatmap") so the README features explicitly reference slide/heatmap support and link it conceptually to image analysis/WSI workflows.
🤖 Prompt for all review comments with AI agents
Verify each finding against the current code and only fix it if needed.
Outside diff comments:
In `@docs/learn/get-started/quick-start.md`:
- Around line 10-14: The resource overview is missing the new Slide resource;
update the high-level resources list (the same block that currently mentions
client.models and client.qc) to also include `client.slide` with a short
descriptor (e.g., for slide-related endpoints), so the overview matches the
detailed documentation below and lists `client.models`, `client.qc`, and
`client.slide`.
---
Nitpick comments:
In `@README.md`:
- Around line 13-18: Add a new bullet to the Features list noting the slide
heatmap functionality introduced by the PR: mention the client.slide.heatmap API
(e.g., "Slide heatmaps: Generate overlay heatmaps for whole-slide images via
client.slide.heatmap") so the README features explicitly reference slide/heatmap
support and link it conceptually to image analysis/WSI workflows.
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README.mddocs/learn/get-started/quick-start.mddocs/reference/resources/slide.mdmkdocs.yml
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Code Review
This pull request significantly improves the project's documentation by cleaning up the README, removing duplicate information, and directing users to a more comprehensive documentation site. A new 'Slide' section has been added to the documentation to cover heatmap generation functionality. The changes are well-organized and enhance the user experience. I've identified one minor syntax error in a new documentation file that will prevent part of the documentation from rendering correctly.
| #### `client.slide.heatmap` | ||
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| Signature: | ||
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| `heatmap(model: str, slide_path: str, tissue_mask_path: str, output_path: str, stride_fraction: float = 0.5, output_bigtiff_tile_height: int = 512, output_bigtiff_tile_width: int = 512, timeout=1000) -> str` | ||
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| - `model`: Model identifier appended to `models_base_url`. | ||
| - `slide_path`: Path to the whole-slide image (evaluated by the service). | ||
| - `tissue_mask_path`: Path to the tissue mask for the slide (evaluated by the service). | ||
| - `output_path`: Path where the output heatmap BigTIFF will be saved (evaluated by the service). | ||
| - `stride_fraction`: Fraction of the tile size used as stride between tiles (default: `0.5`). | ||
| - `output_bigtiff_tile_height`: Tile height of the generated BigTIFF heatmap in pixels (default: `512`). | ||
| - `output_bigtiff_tile_width`: Tile width of the generated BigTIFF heatmap in pixels (default: `512`). | ||
| - `timeout`: Optional request timeout (default is 1000 seconds). | ||
| - Returns: path to the generated heatmap (matches `output_path`). |
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Do not copy the API reference to quick start. Also remove it for the other methods
Mentioned in Issue #4
README is now without any duplicity and Slide section was added into the docs
Summary by CodeRabbit