Datasets:

kanand123
/

st-recon-merfish-breast-cancer

Error code:   StreamingRowsError
Exception:    ValueError
Message:      Dataset 'transcript_pos' has length 10704323 but expected 11895
Traceback:    Traceback (most recent call last):
                File "/src/services/worker/src/worker/utils.py", line 99, in get_rows_or_raise
                  return get_rows(
                         ^^^^^^^^^
                File "/src/libs/libcommon/src/libcommon/utils.py", line 272, in decorator
                  return func(*args, **kwargs)
                         ^^^^^^^^^^^^^^^^^^^^^
                File "/src/services/worker/src/worker/utils.py", line 77, in get_rows
                  rows_plus_one = list(itertools.islice(ds, rows_max_number + 1))
                                  ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/iterable_dataset.py", line 2690, in __iter__
                  for key, example in ex_iterable:
                                      ^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/iterable_dataset.py", line 2227, in __iter__
                  for key, pa_table in self._iter_arrow():
                                       ^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/iterable_dataset.py", line 2251, in _iter_arrow
                  for key, pa_table in self.ex_iterable._iter_arrow():
                                       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/iterable_dataset.py", line 494, in _iter_arrow
                  for key, pa_table in iterator:
                                       ^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/iterable_dataset.py", line 384, in _iter_arrow
                  for key, pa_table in self.generate_tables_fn(**gen_kwags):
                                       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/packaged_modules/hdf5/hdf5.py", line 80, in _generate_tables
                  num_rows = _check_dataset_lengths(h5, self.info.features)
                             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/packaged_modules/hdf5/hdf5.py", line 359, in _check_dataset_lengths
                  raise ValueError(f"Dataset '{path}' has length {dset.shape[0]} but expected {num_rows}")
              ValueError: Dataset 'transcript_pos' has length 10704323 but expected 11895

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MERFISH Breast Cancer 3D Cell Reconstruction Dataset

Processed MERFISH spatial transcriptomics data (HumanBreastCancerPatient1) for 3D cell shape reconstruction.

Structure

trainval.h5 — 196GB train/val split with cell point clouds and features
trainval_annotations.h5 — 4.9MB train/val cell type annotations
trainval_indices.npy — 857KB train/val cell indices
test.h5 — 22GB test split with cell point clouds and features
test_annotations.h5 — 553KB test cell type annotations
test_indices.npy — 95KB test cell indices
vis_cells.h5 — 4.9MB visualization cell subset

Downloads last month: 56

Total file size:

218 GB