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TST: update tests for dev branch (#143)
* begin to update tests * do not resize images prior to transform This introduces subtle differences from the current stable version of wsinfer. * fix for issue #125 * do not save slide path in model outputs csv * add test_cli_run_with_registered_models * add reference model outputs These reference outputs were created using a patched version of 0.3.6 wsinfer. The patches involved padding the patches from large-image to be the expected patch size. Large image does not pad images by default, whereas openslide and tiffslide pad with black. * skip jit tests and cli with custom config
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tests/reference/breast-tumor-inception_v4.tcga-brca/purple.csv
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,145 @@ | ||
| minx,miny,width,height,prob_notumor,prob_tumor | ||
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| 0,2100,350,350,0.9564111828804016,0.0435887686908245 | ||
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| 0,3150,350,350,0.9564111828804016,0.0435887686908245 | ||
| 0,3500,350,350,0.9564111828804016,0.0435887686908245 | ||
| 0,3850,350,350,0.9600746631622314,0.0399253033101558 | ||
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| 350,350,350,350,0.9564111828804016,0.0435887686908245 | ||
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| 2450,1050,350,350,0.9564111828804016,0.0435887686908245 | ||
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| 2450,2800,350,350,0.9564111828804016,0.0435887686908245 | ||
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| 2450,3850,350,350,0.9600746631622314,0.0399253033101558 | ||
| 2800,0,350,350,0.9564111828804016,0.0435887686908245 | ||
| 2800,350,350,350,0.9564111828804016,0.0435887686908245 | ||
| 2800,700,350,350,0.9564111828804016,0.0435887686908245 | ||
| 2800,1050,350,350,0.9564111828804016,0.0435887686908245 | ||
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| 2800,1750,350,350,0.9564111828804016,0.0435887686908245 | ||
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| 2800,2450,350,350,0.9564111828804016,0.0435887686908245 | ||
| 2800,2800,350,350,0.9564111828804016,0.0435887686908245 | ||
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| 2800,3500,350,350,0.9564111828804016,0.0435887686908245 | ||
| 2800,3850,350,350,0.9600746631622314,0.0399253033101558 | ||
| 3150,0,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3150,350,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3150,700,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3150,1050,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3150,1400,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3150,1750,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3150,2100,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3150,2450,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3150,2800,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3150,3150,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3150,3500,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3150,3850,350,350,0.9600746631622314,0.0399253033101558 | ||
| 3500,0,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3500,350,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3500,700,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3500,1050,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3500,1400,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3500,1750,350,350,0.9564111828804016,0.0435887686908245 | ||
| 3500,2100,350,350,0.9564111828804016,0.0435887686908245 | ||
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| 3500,3500,350,350,0.9564111828804016,0.0435887463390827 | ||
| 3500,3850,350,350,0.9600746631622314,0.0399253405630588 | ||
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| 3850,700,350,350,0.967224657535553,0.0327753536403179 | ||
| 3850,1050,350,350,0.967224657535553,0.0327753536403179 | ||
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| 3850,3850,350,350,0.9655932784080504,0.0344067215919494 |
145 changes: 145 additions & 0 deletions
145
tests/reference/breast-tumor-resnet34.tcga-brca/purple.csv
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,145 @@ | ||
| minx,miny,width,height,prob_notumor,prob_tumor | ||
| 0,0,350,350,0.9525965452194214,0.0474034734070301 | ||
| 0,350,350,350,0.9525965452194214,0.0474034734070301 | ||
| 0,700,350,350,0.9525965452194214,0.0474034734070301 | ||
| 0,1050,350,350,0.9525965452194214,0.0474034734070301 | ||
| 0,1400,350,350,0.9525965452194214,0.0474034734070301 | ||
| 0,1750,350,350,0.9525965452194214,0.0474034734070301 | ||
| 0,2100,350,350,0.9525965452194214,0.0474034734070301 | ||
| 0,2450,350,350,0.9525965452194214,0.0474034734070301 | ||
| 0,2800,350,350,0.9525965452194214,0.0474034734070301 | ||
| 0,3150,350,350,0.9525965452194214,0.0474034734070301 | ||
| 0,3500,350,350,0.9525965452194214,0.0474034734070301 | ||
| 0,3850,350,350,0.983870267868042,0.0161297302693128 | ||
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| 1050,2450,350,350,0.9525965452194214,0.0474034734070301 | ||
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| 1400,1750,350,350,0.9525965452194214,0.0474034734070301 | ||
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| 1400,2450,350,350,0.9525965452194214,0.0474034734070301 | ||
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| 1400,3150,350,350,0.9525965452194214,0.0474034734070301 | ||
| 1400,3500,350,350,0.9525965452194214,0.0474034734070301 | ||
| 1400,3850,350,350,0.983870267868042,0.0161297302693128 | ||
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| 1750,700,350,350,0.9525965452194214,0.0474034734070301 | ||
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| 1750,1400,350,350,0.9525965452194214,0.0474034734070301 | ||
| 1750,1750,350,350,0.9525965452194214,0.0474034734070301 | ||
| 1750,2100,350,350,0.9525965452194214,0.0474034734070301 | ||
| 1750,2450,350,350,0.9525965452194214,0.0474034734070301 | ||
| 1750,2800,350,350,0.9525965452194214,0.0474034734070301 | ||
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| 2100,1050,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2100,1400,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2100,1750,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2100,2100,350,350,0.9525965452194214,0.0474034734070301 | ||
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| 2450,350,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2450,700,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2450,1050,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2450,1400,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2450,1750,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2450,2100,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2450,2450,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2450,2800,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2450,3150,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2450,3500,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2450,3850,350,350,0.983870267868042,0.0161297302693128 | ||
| 2800,0,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2800,350,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2800,700,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2800,1050,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2800,1400,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2800,1750,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2800,2100,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2800,2450,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2800,2800,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2800,3150,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2800,3500,350,350,0.9525965452194214,0.0474034734070301 | ||
| 2800,3850,350,350,0.983870267868042,0.0161297302693128 | ||
| 3150,0,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3150,350,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3150,700,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3150,1050,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3150,1400,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3150,1750,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3150,2100,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3150,2450,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3150,2800,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3150,3150,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3150,3500,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3150,3850,350,350,0.983870267868042,0.0161297302693128 | ||
| 3500,0,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3500,350,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3500,700,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3500,1050,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3500,1400,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3500,1750,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3500,2100,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3500,2450,350,350,0.9525965452194214,0.0474034734070301 | ||
| 3500,2800,350,350,0.9525965452194214,0.0474034063518047 | ||
| 3500,3150,350,350,0.9525965452194214,0.0474034063518047 | ||
| 3500,3500,350,350,0.9525965452194214,0.0474034063518047 | ||
| 3500,3850,350,350,0.983870267868042,0.0161297619342803 | ||
| 3850,0,350,350,0.9536041617393494,0.0463958717882633 | ||
| 3850,350,350,350,0.9536041617393494,0.0463958717882633 | ||
| 3850,700,350,350,0.9536041617393494,0.0463958717882633 | ||
| 3850,1050,350,350,0.9536041617393494,0.0463958717882633 | ||
| 3850,1400,350,350,0.9536041617393494,0.0463958717882633 | ||
| 3850,1750,350,350,0.9536041617393494,0.0463958717882633 | ||
| 3850,2100,350,350,0.9536041617393494,0.0463958717882633 | ||
| 3850,2450,350,350,0.9536041617393494,0.0463958717882633 | ||
| 3850,2800,350,350,0.9536041617393494,0.0463958717882633 | ||
| 3850,3150,350,350,0.9536041617393494,0.0463958717882633 | ||
| 3850,3500,350,350,0.9536041617393494,0.0463958717882633 | ||
| 3850,3850,350,350,0.9831942915916444,0.0168057028204202 |
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