Dataset Viewer
The dataset viewer is not available for this split.
Cannot load the dataset split (in streaming mode) to extract the first rows.
Error code: StreamingRowsError
Exception: CastError
Message: Couldn't cast
dataset_id: string
row: struct<7 transmembrane receptor (rhodopsin family): string, 7tm_1: string, CL0192: string, GPCR_A: s (... 23 chars omitted)
child 0, 7 transmembrane receptor (rhodopsin family): string
child 1, 7tm_1: string
child 2, CL0192: string
child 3, GPCR_A: string
child 4, PF00001: string
row_index: int64
source_file: string
format: string
tables: list<item: struct<bytes: int64, category: string, dataset_id: string, output_file: string, rows: int (... 41 chars omitted)
child 0, item: struct<bytes: int64, category: string, dataset_id: string, output_file: string, rows: int64, source_ (... 29 chars omitted)
child 0, bytes: int64
child 1, category: string
child 2, dataset_id: string
child 3, output_file: string
child 4, rows: int64
child 5, source_file: string
child 6, status: string
category: string
total_rows: int64
to
{'category': Value('string'), 'dataset_id': Value('string'), 'format': Value('string'), 'tables': List({'bytes': Value('int64'), 'category': Value('string'), 'dataset_id': Value('string'), 'output_file': Value('string'), 'rows': Value('int64'), 'source_file': Value('string'), 'status': Value('string')}), 'total_rows': Value('int64')}
because column names don't match
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/json/json.py", line 299, in _generate_tables
self._cast_table(pa_table, json_field_paths=json_field_paths),
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.12/site-packages/datasets/packaged_modules/json/json.py", line 128, in _cast_table
pa_table = table_cast(pa_table, self.info.features.arrow_schema)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 2321, in table_cast
return cast_table_to_schema(table, schema)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 2249, in cast_table_to_schema
raise CastError(
datasets.table.CastError: Couldn't cast
dataset_id: string
row: struct<7 transmembrane receptor (rhodopsin family): string, 7tm_1: string, CL0192: string, GPCR_A: s (... 23 chars omitted)
child 0, 7 transmembrane receptor (rhodopsin family): string
child 1, 7tm_1: string
child 2, CL0192: string
child 3, GPCR_A: string
child 4, PF00001: string
row_index: int64
source_file: string
format: string
tables: list<item: struct<bytes: int64, category: string, dataset_id: string, output_file: string, rows: int (... 41 chars omitted)
child 0, item: struct<bytes: int64, category: string, dataset_id: string, output_file: string, rows: int64, source_ (... 29 chars omitted)
child 0, bytes: int64
child 1, category: string
child 2, dataset_id: string
child 3, output_file: string
child 4, rows: int64
child 5, source_file: string
child 6, status: string
category: string
total_rows: int64
to
{'category': Value('string'), 'dataset_id': Value('string'), 'format': Value('string'), 'tables': List({'bytes': Value('int64'), 'category': Value('string'), 'dataset_id': Value('string'), 'output_file': Value('string'), 'rows': Value('int64'), 'source_file': Value('string'), 'status': Value('string')}), 'total_rows': Value('int64')}
because column names don't matchNeed help to make the dataset viewer work? Make sure to review how to configure the dataset viewer, and open a discussion for direct support.
Pfam (Current Release)
Pfam-A clans and regions tables (current release), normalized to newline-delimited JSON with row-level provenance.
Processed and uploaded by the MegaData post-download pipeline (internal repo). Original source: http://ftp.ebi.ac.uk/pub/databases/Pfam/current_release/.
Statistics
| Table files | 2 |
| Total rows | 128,220,423 |
| Total bytes | 38.52 GiB (41,355,825,506) |
Tables
| Table | Rows | Bytes |
|---|---|---|
annotation_pfam_current_release_Pfam-A.clans.tsv.gz.jsonl |
27,480 | 7.00 MiB |
annotation_pfam_current_release_Pfam-A.regions.tsv.gz.jsonl |
128,192,943 | 38.51 GiB |
Layout
.
├── _MANIFEST.json # aggregate manifest (per-table counts)
└── tables/<source_slug>.jsonl # normalized rows (one JSON object per line)
Each line in a tables/*.jsonl file is a JSON object with at least
dataset_id, row (the raw upstream row), row_index, and source_file
fields, so every row carries its upstream provenance.
Loading
hf download LiteFold/Pfam --repo-type dataset --local-dir ./pfam
Programmatic streaming:
import json
from pathlib import Path
from huggingface_hub import snapshot_download
local = snapshot_download(repo_id="LiteFold/Pfam", repo_type="dataset")
for jsonl in sorted(Path(local, "tables").glob("*.jsonl")):
with jsonl.open() as f:
for line in f:
row = json.loads(line)
... # row["row"] is the upstream record
License
CC0 1.0 (EMBL-EBI Pfam).
Citation
Mistry J, et al. Pfam: The protein families database in 2021. Nucleic Acids Research, 49(D1):D412-D419, 2021.
Provenance
Built from the local manifest entry pfam of manifests/atlas_download_plan.json.
Pipeline source: megadata-post normalize --dataset pfam --tables-only.
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