Uploaded license + readme + remaining patients
Browse files- 13/13_CT_HR.nii.gz +3 -0
- 13/13_CT_HR_label_airways.nii.gz +3 -0
- 13/13_CT_HR_label_lungs.nii.gz +3 -0
- 14/14_CT_HR.nii.gz +3 -0
- 14/14_CT_HR_label_airways.nii.gz +3 -0
- 14/14_CT_HR_label_lungs.nii.gz +3 -0
- 15/15_CT_HR.nii.gz +3 -0
- 15/15_CT_HR_label_airways.nii.gz +3 -0
- 15/15_CT_HR_label_lungs.nii.gz +3 -0
- 16/16_CT_HR.nii.gz +3 -0
- 16/16_CT_HR_label_airways.nii.gz +3 -0
- 16/16_CT_HR_label_lungs.nii.gz +3 -0
- 17/17_CT_HR.nii.gz +3 -0
- 17/17_CT_HR_label_airways.nii.gz +3 -0
- 17/17_CT_HR_label_lungs.nii.gz +3 -0
- 18/18_CT_HR.nii.gz +3 -0
- 18/18_CT_HR_label_airways.nii.gz +3 -0
- 18/18_CT_HR_label_lungs.nii.gz +3 -0
- 19/19_CT_HR.nii.gz +3 -0
- 19/19_CT_HR_label_airways.nii.gz +3 -0
- 19/19_CT_HR_label_lungs.nii.gz +3 -0
- 20/20_CT_HR.nii.gz +3 -0
- 20/20_CT_HR_label_airways.nii.gz +3 -0
- 20/20_CT_HR_label_lungs.nii.gz +3 -0
- 21/21_CT_HR.nii.gz +3 -0
- 21/21_CT_HR_label_airways.nii.gz +3 -0
- 21/21_CT_HR_label_lungs.nii.gz +3 -0
- 22/22_CT_HR.nii.gz +3 -0
- 22/22_CT_HR_label_airways.nii.gz +3 -0
- 22/22_CT_HR_label_lungs.nii.gz +3 -0
- 23/23_CT_HR.nii.gz +3 -0
- 23/23_CT_HR_label_airways.nii.gz +3 -0
- 23/23_CT_HR_label_lungs.nii.gz +3 -0
- 24/24_CT_HR.nii.gz +3 -0
- 24/24_CT_HR_label_airways.nii.gz +3 -0
- 24/24_CT_HR_label_lungs.nii.gz +3 -0
- 25/25_CT_HR.nii.gz +3 -0
- 25/25_CT_HR_label_airways.nii.gz +3 -0
- 25/25_CT_HR_label_lungs.nii.gz +3 -0
- 26/26_CT_HR.nii.gz +3 -0
- 26/26_CT_HR_label_airways.nii.gz +3 -0
- 26/26_CT_HR_label_lungs.nii.gz +3 -0
- 27/27_CT_HR.nii.gz +3 -0
- 27/27_CT_HR_label_airways.nii.gz +3 -0
- 27/27_CT_HR_label_lungs.nii.gz +3 -0
- README.md +63 -3
- license.md +396 -0
13/13_CT_HR.nii.gz
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This README file was generated on 03-11-2023 by David Bouget.
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Last updated: 03-11-2023.
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--------------------
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GENERAL INFORMATION
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--------------------
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1. Title of Dataset: AeroPath
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2. Publication and DOI: "AeroPath: An airway segmentation benchmark dataset with challenging pathology". https://arxiv.org/abs/2311.01138
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3. Contact Information
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Name: Erlend F. Hofstad
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Institution: Medical Technology Department, SINTEF Digital, Trondheim
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Email: [email protected]
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Website: https://www.sintef.no/en/all-employees/employee/erlend.hofstad/
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4. Contributors: Karen-Helene Støverud, Haakon Olav Leira, Erlend F. Hofstad, Andre Pedersen, David Bouget, and Thomas Langø.
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5. Kind of data: computed tomography angiography (CTA) scans and binary annotation masks, all stored as NifTI files (*.nii.gz).
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6. Date of data collection/generation: .
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7. Geographic location: Trondheim, Norway.
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8. Funding sources: the Ministry of Health and Care Services of Norway through the Norwegian National Research Center for Minimally Invasive and Image-Guided Diagnostics and Therapy (MiDT) at St. Olavs hospital, Trondheim University Hospital, Trondheim, Norway. The research leading to these results has in addition received funding from the Norwegian Financial Mechanism 2014-2021 under the project RO- NO2019-0138, 19/2020 “Improving Cancer Diagnostics in Flexible Endoscopy using Artificial Intelligence and Medical Robotics” IDEAR, Contract No. 19/2020.
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9. Description of dataset:
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General description and ethics approvals: The dataset contains 27 computed tomography angiography
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(CTA) scans, acquired using the Thorax Lung protocol at St. Olavs hospital (Trondheim, Norway). The included patients (nine women), aged 52 to 84 (median 70), were all undergoing diagnostic tests for lung cancer and had a wide range of pathologies including malignant tumors, sarcoidosis, and emphysema.
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---------------------------
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SHARING/ACCESS INFORMATION
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---------------------------
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1. Licenses/Restrictions:CC-BY 4.0 (See license.md).
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2. Recommended citation: See citation recommended at https://github.com/raidionics/AeroPath.
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---------------------
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DATA & FILE OVERVIEW
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---------------------
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1. File List:
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README.md
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license.md
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└── 1/
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└── 1_CT_HR.nii.gz
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└── 1_CT_HR_label_airways.nii.gz
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└── 1_CT_HR_label_lungs.nii.gz
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.
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.
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.
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└── 27/
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└── 27_CT_HR.nii.gz
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└── 27_CT_HR_label_airways.nii.gz
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└── 27_CT_HR_label_lungs.nii.gz
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---------------------------
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METHODOLOGICAL INFORMATION
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---------------------------
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1. Description of sources and methods used for collection/generation of data:
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Dataset statistics
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Overall, the CT scan dimensions are covering [487 : 512] × [441 : 512] × [241 : 829] voxels, and the trans-axial voxel size ranges [0.68 : 0.76] × [0.68 : 0.75] mm2 with a reconstructed slice thickness of [0.5 : 1.25] mm.
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Annotation procedures
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The annotation process for generating the ground truth was performed in three steps. First, the largest components (i.e., trachea and the first branches) were extracted based on a region growing, or a grow-cut method. Due to leakage, the region growing method did not yield satisfactory results in all cases. Therefore, for certain cases, the grow-cut method in 3D Slicer was used instead. In the second step, BronchiNet was employed to segment the smaller peripheral airways. In the third and final step, the segmentations were refined manually. Bronchial fragments and missed segments were connected, before false positives and fragments that could not be connected based on visual inspection were removed. All manual corrections were performed using the default segment editor in 3D Slicer. The manual correction was performed by a trained engineer, supervised by a pulmonologist. Finally, all annotations were verified on a case-by-case basis by a pulmonologist. The final annotations from the AeroPath segmentation included on average 128 ± 56 branches per CT scan.
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license.md
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6. No endorsement. Nothing in this Public License constitutes or
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may be construed as permission to assert or imply that You
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are, or that Your use of the Licensed Material is, connected
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the Licensor or others designated to receive attribution as
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provided in Section 3(a)(1)(A)(i).
|
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|
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b. Other rights.
|
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|
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1. Moral rights, such as the right of integrity, are not
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licensed under this Public License, nor are publicity,
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privacy, and/or other similar personality rights; however, to
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the extent possible, the Licensor waives and/or agrees not to
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assert any such rights held by the Licensor to the limited
|
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extent necessary to allow You to exercise the Licensed
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Rights, but not otherwise.
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|
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2. Patent and trademark rights are not licensed under this
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Public License.
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3. To the extent possible, the Licensor waives any right to
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collect royalties from You for the exercise of the Licensed
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under any voluntary or waivable statutory or compulsory
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licensing scheme. In all other cases the Licensor expressly
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Section 3 -- License Conditions.
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Your exercise of the Licensed Rights is expressly made subject to the
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following conditions.
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a. Attribution.
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1. If You Share the Licensed Material (including in modified
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a. retain the following if it is supplied by the Licensor
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with the Licensed Material:
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i. identification of the creator(s) of the Licensed
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Material and any others designated to receive
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attribution, in any reasonable manner requested by
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the Licensor (including by pseudonym if
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designated);
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ii. a copyright notice;
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iii. a notice that refers to this Public License;
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warranties;
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v. a URI or hyperlink to the Licensed Material to the
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extent reasonably practicable;
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retain an indication of any previous modifications; and
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c. indicate the Licensed Material is licensed under this
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hyperlink to, this Public License.
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2. You may satisfy the conditions in Section 3(a)(1) in any
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reasonable manner based on the medium, means, and context in
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which You Share the Licensed Material. For example, it may be
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reasonable to satisfy the conditions by providing a URI or
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hyperlink to a resource that includes the required
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information.
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information required by Section 3(a)(1)(A) to the extent
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reasonably practicable.
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4. If You Share Adapted Material You produce, the Adapter's
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Where the Licensed Rights include Sui Generis Database Rights that
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apply to Your use of the Licensed Material:
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to extract, reuse, reproduce, and Share all or a substantial
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all or a substantial portion of the contents of the database.
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For the avoidance of doubt, this Section 4 supplements and does not
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replace Your obligations under this Public License where the Licensed
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|
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USE OF THE LICENSED MATERIAL, EVEN IF THE LICENSOR HAS BEEN
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ADVISED OF THE POSSIBILITY OF SUCH LOSSES, COSTS, EXPENSES, OR
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IN PART, THIS LIMITATION MAY NOT APPLY TO YOU.
|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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violation; or
|
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|
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|
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For the avoidance of doubt, this Section 6(b) does not affect any
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|
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|
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|
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|
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|
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d. Sections 1, 5, 6, 7, and 8 survive termination of this Public
|
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|
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|
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|
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Section 7 -- Other Terms and Conditions.
|
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|
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|
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|
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Section 8 -- Interpretation.
|
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|
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|
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shall not be interpreted to, reduce, limit, restrict, or impose
|
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conditions on any use of the Licensed Material that could lawfully
|
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|
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|
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|
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|
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minimum extent necessary to make it enforceable. If the provision
|
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|
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|
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|
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|
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|
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failure to comply consented to unless expressly agreed to by the
|
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Licensor.
|
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|
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d. Nothing in this Public License constitutes or may be interpreted
|
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|
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