Datasets:
py file change
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- ark_example.py +2 -5
- data/fovs.zip +2 -2
- data/fovs/TMA10_R7C3/CD14.tiff +3 -0
- data/fovs/TMA10_R7C3/CD163.tiff +3 -0
- data/fovs/TMA10_R7C3/CD20.tiff +3 -0
- data/fovs/TMA10_R7C3/CD3.tiff +3 -0
- data/fovs/TMA10_R7C3/CD31.tiff +3 -0
- data/fovs/TMA10_R7C3/CD4.tiff +3 -0
- data/fovs/TMA10_R7C3/CD45.tiff +3 -0
- data/fovs/TMA10_R7C3/CD68.tiff +3 -0
- data/fovs/TMA10_R7C3/CD8.tiff +3 -0
- data/fovs/TMA10_R7C3/CK17.tiff +3 -0
- data/fovs/TMA10_R7C3/Collagen1.tiff +3 -0
- data/fovs/TMA10_R7C3/ECAD.tiff +3 -0
- data/fovs/TMA10_R7C3/Fibronectin.tiff +3 -0
- data/fovs/TMA10_R7C3/GLUT1.tiff +3 -0
- data/fovs/TMA10_R7C3/H3K27me3.tiff +3 -0
- data/fovs/TMA10_R7C3/H3K9ac.tiff +3 -0
- data/fovs/TMA10_R7C3/HLADR.tiff +3 -0
- data/fovs/TMA10_R7C3/IDO.tiff +3 -0
- data/fovs/TMA10_R7C3/Ki67.tiff +3 -0
- data/fovs/TMA10_R7C3/PD1.tiff +3 -0
- data/fovs/TMA10_R7C3/SMA.tiff +3 -0
- data/fovs/TMA10_R7C3/Vim.tiff +3 -0
- data/fovs/TMA11_R9C6/CD14.tiff +3 -0
- data/fovs/TMA11_R9C6/CD163.tiff +3 -0
- data/fovs/TMA11_R9C6/CD20.tiff +3 -0
- data/fovs/TMA11_R9C6/CD3.tiff +3 -0
- data/fovs/TMA11_R9C6/CD31.tiff +3 -0
- data/fovs/TMA11_R9C6/CD4.tiff +3 -0
- data/fovs/TMA11_R9C6/CD45.tiff +3 -0
- data/fovs/TMA11_R9C6/CD68.tiff +3 -0
- data/fovs/TMA11_R9C6/CD8.tiff +3 -0
- data/fovs/TMA11_R9C6/CK17.tiff +3 -0
- data/fovs/TMA11_R9C6/Collagen1.tiff +3 -0
- data/fovs/TMA11_R9C6/ECAD.tiff +3 -0
- data/fovs/TMA11_R9C6/Fibronectin.tiff +3 -0
- data/fovs/TMA11_R9C6/GLUT1.tiff +3 -0
- data/fovs/TMA11_R9C6/H3K27me3.tiff +3 -0
- data/fovs/TMA11_R9C6/H3K9ac.tiff +3 -0
- data/fovs/TMA11_R9C6/HLADR.tiff +3 -0
- data/fovs/TMA11_R9C6/IDO.tiff +3 -0
- data/fovs/TMA11_R9C6/Ki67.tiff +3 -0
- data/fovs/TMA11_R9C6/PD1.tiff +3 -0
- data/fovs/TMA11_R9C6/SMA.tiff +3 -0
- data/fovs/TMA11_R9C6/Vim.tiff +3 -0
- data/fovs/TMA13_R8C5/CD14.tiff +3 -0
- data/fovs/TMA13_R8C5/CD163.tiff +3 -0
- data/fovs/TMA13_R8C5/CD20.tiff +3 -0
- data/fovs/TMA13_R8C5/CD3.tiff +3 -0
ark_example.py
CHANGED
@@ -141,23 +141,20 @@ class ArkExample(datasets.GeneratorBasedBuilder):
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name="BASE_DATASET",
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# These kwargs will be passed to _generate_examples
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gen_kwargs={
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-
"filepath": pathlib.Path(data_dir)
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},
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),
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]
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# method parameters are unpacked from `gen_kwargs` as given in `_split_generators`
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def _generate_examples(self, filepath: pathlib.Path):
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# TODO: This method handles input defined in _split_generators to yield (key, example) tuples from the dataset.
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# The `key` is for legacy reasons (tfds) and is not important in itself, but must be unique for each example.
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file_paths = list(filepath.rglob("*"))
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for fp in file_paths:
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if fp.suffix in [".tiff", ".tif"]:
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image_data = tifffile.imread(fp, key=0)
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if self.config.name == "
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yield fp.parent.stem, {
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"chan": image_data,
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"path": fp
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name="BASE_DATASET",
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# These kwargs will be passed to _generate_examples
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gen_kwargs={
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+
"filepath": pathlib.Path(data_dir)
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},
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),
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]
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# method parameters are unpacked from `gen_kwargs` as given in `_split_generators`
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def _generate_examples(self, filepath: pathlib.Path):
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file_paths = list(filepath.rglob("*"))
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for fp in file_paths:
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if fp.suffix in [".tiff", ".tif"]:
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image_data = tifffile.imread(fp, key=0)
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+
if self.config.name == "BASE_DATASET":
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yield fp.parent.stem, {
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"chan": image_data,
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"path": fp
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data/fovs.zip
CHANGED
@@ -1,3 +1,3 @@
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version https://git-lfs.github.com/spec/v1
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oid sha256:
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size
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version https://git-lfs.github.com/spec/v1
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+
oid sha256:a87b62a2a7281cbbcdf2e7c1749130fc6a6d22b668ef5e85cac9663a9431ec78
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+
size 400326292
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data/fovs/TMA10_R7C3/CD14.tiff
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Git LFS Details
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data/fovs/TMA10_R7C3/CD163.tiff
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Git LFS Details
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data/fovs/TMA10_R7C3/CD20.tiff
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Git LFS Details
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data/fovs/TMA10_R7C3/CD3.tiff
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Git LFS Details
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data/fovs/TMA10_R7C3/CD31.tiff
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Git LFS Details
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data/fovs/TMA10_R7C3/CD4.tiff
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Git LFS Details
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data/fovs/TMA10_R7C3/CD45.tiff
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Git LFS Details
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data/fovs/TMA10_R7C3/CD68.tiff
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Git LFS Details
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data/fovs/TMA10_R7C3/CD8.tiff
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Git LFS Details
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data/fovs/TMA10_R7C3/CK17.tiff
ADDED
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Git LFS Details
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data/fovs/TMA10_R7C3/Collagen1.tiff
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Git LFS Details
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data/fovs/TMA10_R7C3/ECAD.tiff
ADDED
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Git LFS Details
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data/fovs/TMA10_R7C3/Fibronectin.tiff
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Git LFS Details
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data/fovs/TMA10_R7C3/GLUT1.tiff
ADDED
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Git LFS Details
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data/fovs/TMA10_R7C3/H3K27me3.tiff
ADDED
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Git LFS Details
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data/fovs/TMA10_R7C3/H3K9ac.tiff
ADDED
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Git LFS Details
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data/fovs/TMA10_R7C3/HLADR.tiff
ADDED
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Git LFS Details
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data/fovs/TMA10_R7C3/IDO.tiff
ADDED
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Git LFS Details
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data/fovs/TMA10_R7C3/Ki67.tiff
ADDED
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Git LFS Details
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data/fovs/TMA10_R7C3/PD1.tiff
ADDED
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Git LFS Details
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data/fovs/TMA10_R7C3/SMA.tiff
ADDED
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Git LFS Details
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data/fovs/TMA10_R7C3/Vim.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/CD14.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/CD163.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/CD20.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/CD3.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/CD31.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/CD4.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/CD45.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/CD68.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/CD8.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/CK17.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/Collagen1.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/ECAD.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/Fibronectin.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/GLUT1.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/H3K27me3.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/H3K9ac.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/HLADR.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/IDO.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/Ki67.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/PD1.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/SMA.tiff
ADDED
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Git LFS Details
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data/fovs/TMA11_R9C6/Vim.tiff
ADDED
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Git LFS Details
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data/fovs/TMA13_R8C5/CD14.tiff
ADDED
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Git LFS Details
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data/fovs/TMA13_R8C5/CD163.tiff
ADDED
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Git LFS Details
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data/fovs/TMA13_R8C5/CD20.tiff
ADDED
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Git LFS Details
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data/fovs/TMA13_R8C5/CD3.tiff
ADDED
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Git LFS Details
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