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| cases: |
| - name: argon-bubble |
| path: SciVisAgentBench-tasks/paraview/argon-bubble |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Color & Opacity Mapping, Volume Rendering |
| agent_mode: paraview_mcp_claude-sonnet-4-5_exp1 |
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| - name: richtmyer |
| path: SciVisAgentBench-tasks/paraview/richtmyer |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Color & Opacity Mapping, Volume Rendering |
| agent_mode: paraview_mcp_claude-sonnet-4-5_exp1 |
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| - name: foot |
| path: SciVisAgentBench-tasks/paraview/foot |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Volume Rendering |
| agent_mode: paraview_mcp_claude-sonnet-4-5_exp1 |
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| - name: crayfish_streamline |
| path: SciVisAgentBench-tasks/paraview/crayfish_streamline |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Surface & Contour Extraction |
| agent_mode: chatvis_claude-sonnet-4-5_exp1 |
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| - name: twoswirls_streamribbon |
| path: SciVisAgentBench-tasks/paraview/twoswirls_streamribbon |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Surface & Contour Extraction |
| agent_mode: chatvis_claude-sonnet-4-5_exp1 |
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| - name: tornado |
| path: SciVisAgentBench-tasks/paraview/tornado |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Surface & Contour Extraction, Glyph & Marker Placement |
| agent_mode: chatvis_claude-sonnet-4-5_exp1 |
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| - name: tgc-velocity_contour |
| path: SciVisAgentBench-tasks/paraview/tgc-velocity_contour |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Surface & Contour Extraction |
| agent_mode: paraview_mcp_claude-sonnet-4-5_exp1 |
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| - name: rti-velocity_slices |
| path: SciVisAgentBench-tasks/paraview/rti-velocity_slices |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: View & Camera Control, Data Subsetting & Extraction |
| agent_mode: paraview_mcp_claude-sonnet-4-5_exp1 |
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| - name: rti-velocity_glyph |
| path: SciVisAgentBench-tasks/paraview/rti-velocity_glyph |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Glyph & Marker Placement, Data Subsetting & Extraction |
| agent_mode: chatvis_claude-sonnet-4-5_exp1 |
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| - name: supernova_isosurface |
| path: SciVisAgentBench-tasks/paraview/supernova_isosurface |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Surface & Contour Extraction (isosurface) |
| agent_mode: chatvis_claude-sonnet-4-5_exp1 |
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| - name: time-varying |
| path: SciVisAgentBench-tasks/paraview/time-varying |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Temporal Processing |
| agent_mode: chatvis_claude-sonnet-4-5_exp1 |
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| - name: chart-opacity |
| path: SciVisAgentBench-tasks/paraview/chart-opacity |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Plot & Chart Generation |
| agent_mode: chatvis_claude-sonnet-4-5_exp1 |
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| - name: climate |
| path: SciVisAgentBench-tasks/paraview/climate |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Field Computation |
| agent_mode: chatvis_claude-sonnet-4-5_exp1 |
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| - name: shrink-sphere |
| path: SciVisAgentBench-tasks/paraview/shrink-sphere |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Geometric & Topological Transformation |
| agent_mode: chatvis_claude-sonnet-4-5_exp1 |
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| - name: import-gltf |
| path: SciVisAgentBench-tasks/paraview/import-gltf |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Dataset Restructuring, View & Camera Control |
| agent_mode: paraview_mcp_claude-sonnet-4-5_exp1 |
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| - name: render-histogram |
| path: SciVisAgentBench-tasks/paraview/render-histogram |
| yaml: benchmark/eval_cases/paraview/paraview_cases.yaml |
| description: Plot & Chart Generation, Color & Opacity Mapping |
| agent_mode: chatvis_claude-sonnet-4-5_exp1 |
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| - name: curved-membrane |
| path: SciVisAgentBench-tasks/molecular_vis/workflows/curved-membrane |
| yaml: benchmark/eval_cases/molecular_vis/workflows/eval_analysis_workflows.yaml |
| description: Data Subsetting & Extraction |
| agent_mode: gmx_vmd_mcp_claude-sonnet-4-5_exp1 |
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| - name: ras-raf-membrane |
| path: SciVisAgentBench-tasks/molecular_vis/workflows/ras-raf-membrane |
| yaml: benchmark/eval_cases/molecular_vis/workflows/eval_analysis_workflows.yaml |
| description: View & Camera Control |
| agent_mode: gmx_vmd_mcp_claude-sonnet-4-5_exp1 |
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| - name: bio_isosurface-determination |
| path: SciVisAgentBench-tasks\bioimage_data\eval_iso_surface_determination\operation_1 |
| yaml: benchmark\eval_cases\napari\1_workflows\eval_iso_surface_determination.yaml |
| description: Surface & Contour Extraction (isosurface) |
| agent_mode: napari_mcp_claude-sonnet-4-5_exp_default |
| task_description: |
| 1. Read the file "data/dataset_003/eval_iso_surface_determination_target_1.txt" to get the target iso-surface values for different tooth structures. |
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| 2. Load data/dataset_003/dataset_003.tif into napari. |
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| 3. Switch to 3D view mode and set the rendering to iso. |
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| 4. Find the iso surface value that shows the target clearly. |
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| 5. Rotate the camera to several angles and take a screenshot of the result each time to check if the target structure is clearly visible from different angles. |
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| 6. If the target structure is not clearly visible, adjust the iso surface value and take a screenshot again. |
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| 7. Stop when the target structure is clearly visible or you have tried five different iso surface values. |
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| 8. Save the final screenshot to "eval_iso_surface_determination/screenshot.png". |
| vision-rubrics: |
| 1. Does the result rendering look similar to ground truth? |
| 2. Does the visualization show the target structure clearly? |
|
|
| - name: bio_visualization-workflows |
| path: SciVisAgentBench-tasks\bioimage_data\eval_visualization_workflows\operation_1 |
| yaml: benchmark\eval_cases\napari\1_workflows\eval_visualization_workflows.yaml |
| description: Color & Opacity Mapping, Volume Rendering, Temporal Processing |
| agent_mode: napari_mcp_claude-sonnet-4-5_exp_default |
| task_description: |
| 1. Load the "data/dataset_002/dataset_002.tif" dataset into napari. |
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| 2. Depending on the number of channels, set the colormap for the first channel 0 to red and channel 1 to green. |
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| 3. Switch to the 3D view. |
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| 4. Use additive blending for all channels to create an overlay visualization. |
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| 5. Go the timestep 14. |
| Q1. Does the cell show protrusions? (Yes/No) |
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| 6. Take a screenshot of the result, save it to "eval_visualization_workflows/screenshot_1.png" |
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| 7. Answer Q1 in a plain text file "eval_visualization_workflows/Q1_answer.txt". |
| vision-rubrics: |
| 1. Does the visualization show a green cell with red blobs on the inside? |
| 2. Does the result rendering look similar to ground truth? |
|
|
| - name: bio_figure-recreation |
| path: SciVisAgentBench-tasks\bioimage_data\eval_figure_recreation\operation_1 |
| yaml: benchmark\eval_cases\napari\1_workflows\eval_figure_recreation.yaml |
| description: Color & Opacity Mapping, Volume Rendering |
| agent_mode: napari_mcp_claude-sonnet-4-5_exp_default |
| task_description: |
| 1. Load the dataset into napari "data/dataset_001/dataset_001.tiff" |
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| 2. Read the target figure "data/dataset_001/dataset_001.png" but don't load it into napari. |
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| 3. Read the dataset description "data/dataset_001/dataset_001.yaml". |
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| 4. Set the same colormaps and blending modes as the target figure. |
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| 5. Adjust contrast and gamma as needed to match the target figure. |
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| 6. Take a screenshot of your recreation. |
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| 7. If the recreation does not match the target figure, adjust the visualization settings and take a screenshot again. |
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| 8. Stop when the recreation matches the target figure or you have tried five different visualization settings. |
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| 9. Save the final screenshot to "eval_figure_recreation/screenshot.png". |
| vision-rubrics: |
| 1. Does the visualization show a green cell with red blobs on the inside? |
| 2. Does the result rendering look similar to ground truth? |
