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The dataset generation failed
Error code: DatasetGenerationError
Exception: TypeError
Message: int() argument must be a string, a bytes-like object or a real number, not 'NoneType'
Traceback: Traceback (most recent call last):
File "/usr/local/lib/python3.14/site-packages/datasets/builder.py", line 1520, in _prepare_split_single
for key, record in generator:
^^^^^^^^^
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 613, in wrapped
for item in generator(*args, **kwargs):
~~~~~~~~~^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/packaged_modules/webdataset/webdataset.py", line 130, in _generate_examples
for example_idx, example in enumerate(self._get_pipeline_from_tar(tar_path, tar_iterator)):
~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/packaged_modules/webdataset/webdataset.py", line 34, in _get_pipeline_from_tar
for filename, f in tar_iterator:
^^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/utils/track.py", line 49, in __iter__
for x in self.generator(*self.args):
~~~~~~~~~~~~~~^^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/utils/file_utils.py", line 1405, in _iter_from_urlpath
with xopen(urlpath, "rb", download_config=download_config, block_size=0) as f:
~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/utils/file_utils.py", line 982, in xopen
file_obj = fs.open(paths[0], mode)
File "<string>", line 3, in open
File "/usr/local/lib/python3.14/unittest/mock.py", line 1176, in __call__
return self._mock_call(*args, **kwargs)
~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.14/unittest/mock.py", line 1180, in _mock_call
return self._execute_mock_call(*args, **kwargs)
~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.14/unittest/mock.py", line 1247, in _execute_mock_call
result = effect(*args, **kwargs)
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 786, in wrapped
tracker.files[urlpath] = {"read": 0, "size": int(f.size)}
~~~^^^^^^^^
TypeError: int() argument must be a string, a bytes-like object or a real number, not 'NoneType'
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 1369, in compute_config_parquet_and_info_response
parquet_operations, partial, estimated_dataset_info = stream_convert_to_parquet(
~~~~~~~~~~~~~~~~~~~~~~~~~^
builder, max_dataset_size_bytes=max_dataset_size_bytes
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
)
^
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 948, in stream_convert_to_parquet
builder._prepare_split(split_generator=splits_generators[split], file_format="parquet")
~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/builder.py", line 1382, in _prepare_split
for job_id, done, content in self._prepare_split_single(
~~~~~~~~~~~~~~~~~~~~~~~~~~^
gen_kwargs=gen_kwargs, job_id=job_id, **_prepare_split_args
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
):
^
File "/usr/local/lib/python3.14/site-packages/datasets/builder.py", line 1560, in _prepare_split_single
raise DatasetGenerationError("An error occurred while generating the dataset") from e
datasets.exceptions.DatasetGenerationError: An error occurred while generating the datasetNeed help to make the dataset viewer work? Make sure to review how to configure the dataset viewer, and open a discussion for direct support.
pdb unknown | __key__ string | __url__ string |
|---|---|---|
"SEVBREVSICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAyNi1NQVItMjIgICBYWFhYICAgICAgICA(...TRUNCATED) | Models_VDJdb/VDJdb_Model_1390_min | "hf://datasets/isalgo/tcren_structures@26707057c34a9e575c706d598284f5afd5a0817e/VDJdbMut2023/Models_(...TRUNCATED) |
"SEVBREVSICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAyMC1BUFItMjIgICBYWFhYICAgICAgICA(...TRUNCATED) | Models_VDJdb/VDJdb_Model_867_min | "hf://datasets/isalgo/tcren_structures@26707057c34a9e575c706d598284f5afd5a0817e/VDJdbMut2023/Models_(...TRUNCATED) |
"SEVBREVSICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAyNi1NQVItMjIgICBYWFhYICAgICAgICA(...TRUNCATED) | Models_VDJdb/VDJdb_Model_1228_repacked | "hf://datasets/isalgo/tcren_structures@26707057c34a9e575c706d598284f5afd5a0817e/VDJdbMut2023/Models_(...TRUNCATED) |
"SEVBREVSICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAzMC1NQVItMjIgICBYWFhYICAgICAgICA(...TRUNCATED) | Models_VDJdb/VDJdb_Model_1575_min | "hf://datasets/isalgo/tcren_structures@26707057c34a9e575c706d598284f5afd5a0817e/VDJdbMut2023/Models_(...TRUNCATED) |
"SEVBREVSICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAyNy1NQVItMjIgICBYWFhYICAgICAgICA(...TRUNCATED) | Models_VDJdb/VDJdb_Model_1136_repacked | "hf://datasets/isalgo/tcren_structures@26707057c34a9e575c706d598284f5afd5a0817e/VDJdbMut2023/Models_(...TRUNCATED) |
"SEVBREVSICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAyNy1NQVItMjIgICBYWFhYICAgICAgICA(...TRUNCATED) | Models_VDJdb/VDJdb_Model_684_repacked | "hf://datasets/isalgo/tcren_structures@26707057c34a9e575c706d598284f5afd5a0817e/VDJdbMut2023/Models_(...TRUNCATED) |
"SEVBREVSICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAxOS1BUFItMjIgICBYWFhYICAgICAgICA(...TRUNCATED) | Models_VDJdb/VDJdb_Model_18_min | "hf://datasets/isalgo/tcren_structures@26707057c34a9e575c706d598284f5afd5a0817e/VDJdbMut2023/Models_(...TRUNCATED) |
"SEVBREVSICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAyNy1NQVItMjIgICBYWFhYICAgICAgICA(...TRUNCATED) | Models_VDJdb/VDJdb_Model_1247_min | "hf://datasets/isalgo/tcren_structures@26707057c34a9e575c706d598284f5afd5a0817e/VDJdbMut2023/Models_(...TRUNCATED) |
"SEVBREVSICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAxOS1BUFItMjIgICBYWFhYICAgICAgICA(...TRUNCATED) | Models_VDJdb/VDJdb_Model_762_repacked | "hf://datasets/isalgo/tcren_structures@26707057c34a9e575c706d598284f5afd5a0817e/VDJdbMut2023/Models_(...TRUNCATED) |
"SEVBREVSICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAgICAyMC1BUFItMjIgICBYWFhYICAgICAgICA(...TRUNCATED) | Models_VDJdb/VDJdb_Model_299_repacked | "hf://datasets/isalgo/tcren_structures@26707057c34a9e575c706d598284f5afd5a0817e/VDJdbMut2023/Models_(...TRUNCATED) |
End of preview.
isalgo/tcren_structures
TCR:peptide:MHC structure sets and benchmarks for TCRen2 (structure-based prediction of TCR
recognition). Fetch with tcren / the manuscript scripts/bootstrap_data.py.
Contents rule: structures as .gz/.tar.gz (LFS) and .txt/.md descriptions only —
no notebooks, figures, or analysis tables.
Layout
| folder | task | contents |
|---|---|---|
Native2026/, Canonical2026/ |
derivation / ergodicity | non-redundant TCR:pMHC structures (.gz) |
Native2022/, PolyV2022/ |
2022-paper reproduction | structure sets (.gz) |
tcrvdb/ |
TCR-ranking (specificity) | 618 TCRmodel2 models (<hash>.pdb) |
cpl/pdb_cpl/ |
peptide-ranking (epitope) | peptide-swap best/worst, 5 TCRs |
as_case/ |
MHC-ranking (B*27:05 vs :02) | as_case.tar.gz + content.md |
Bobisse/, Bigot/ |
neoantigen | cohort structures (.gz) |
The three tasks
TCRen2 scores one interface-decomposed recognition energy Φ (TCRen for TCR:peptide, Miyazawa–Jernigan for the presentation interfaces) and reads it three ways: rank peptides for a TCR:MHC (epitope / neoantigen), rank TCRs for a pMHC (specificity), rank MHC alleles for a TCR:peptide (allele restriction, e.g. ankylosing spondylitis B*27:05 vs :02).
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