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Feature/pip installation #10

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cb06649
Include matplotlib in dependencies
Jul 29, 2024
efff97d
numpy interface has changed: update calls
Jul 31, 2024
52f10ab
Update pyproject.toml to enable installation with pip
Jul 31, 2024
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2 changes: 1 addition & 1 deletion README.md
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Original file line number Diff line number Diff line change
Expand Up @@ -81,7 +81,7 @@ We are grateful to the providers of the example scans used in the tutorials (ori
## Coming Soon

- [x] Documentation
- [ ] Pip installation
- [x] Pip installation
- [ ] In-depth tutorials on finetuning SpineNet's grading network

We are always looking to extend SpineNet to make it a more useful tool. If you have a request for features please get in touch with us.
10 changes: 10 additions & 0 deletions pyproject.toml
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@@ -1,3 +1,13 @@
[project]
name = "spinenet"
description = "Automated software for analysing clinical spinal MRI scans."
version = "2"
readme = "README.md"
license = { file = "LICENCE.md" }

[tool.setuptools]
packages = ["spinenet"]

[tool.black]
line-length = 79
include = '\.pyi?$'
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1 change: 1 addition & 0 deletions requirements.txt
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Expand Up @@ -10,3 +10,4 @@ shapely
torch
torchvision
tqdm
matplotlib
4 changes: 2 additions & 2 deletions spinenet/utils/extract_volumes.py
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Expand Up @@ -43,8 +43,8 @@ def extract_volumes(

rotated_scan, new_bb = straighten_bb(scan, detection_poly)

new_bb_width = new_bb[:, 1].ptp()
new_bb_height = new_bb[:, 0].ptp()
new_bb_width = np.ptp(new_bb[:, 1])
new_bb_height = np.ptp(new_bb[:, 0])
edge_len = np.max([new_bb_height, new_bb_width])
y_min = int(new_bb[-1, 1] - extent * edge_len)
x_min = int(new_bb[-1, 0] - extent * edge_len)
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