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The dataset generation failed because of a cast error
Error code: DatasetGenerationCastError
Exception: DatasetGenerationCastError
Message: An error occurred while generating the dataset
All the data files must have the same columns, but at some point there are 4 new columns ({'pval', 'setsize', 'overlap', 'score'}) and 8 missing columns ({'setsize_std', 'overlap_mean', 'overlap_std', 'score_std', 'setsize_mean', 'score_mean', 'pval_std', 'pval_mean'}).
This happened while the csv dataset builder was generating data using
hf://datasets/ligdis/msigdb_gobp/fragment/C001/C001_val_log2fc/harmon.tsv (at revision 8ef6e851d3c0aaf2ee2822094f414b7df5861698)
Please either edit the data files to have matching columns, or separate them into different configurations (see docs at https://hf.co/docs/hub/datasets-manual-configuration#multiple-configurations)
Traceback: Traceback (most recent call last):
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/builder.py", line 1870, in _prepare_split_single
writer.write_table(table)
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/arrow_writer.py", line 622, in write_table
pa_table = table_cast(pa_table, self._schema)
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/table.py", line 2292, in table_cast
return cast_table_to_schema(table, schema)
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/table.py", line 2240, in cast_table_to_schema
raise CastError(
datasets.table.CastError: Couldn't cast
term: string
overlap: int64
setsize: int64
score: double
pval: double
-- schema metadata --
pandas: '{"index_columns": [{"kind": "range", "name": null, "start": 0, "' + 812
to
{'term': Value(dtype='string', id=None), 'overlap_mean': Value(dtype='float64', id=None), 'setsize_mean': Value(dtype='float64', id=None), 'score_mean': Value(dtype='float64', id=None), 'pval_mean': Value(dtype='float64', id=None), 'overlap_std': Value(dtype='float64', id=None), 'setsize_std': Value(dtype='float64', id=None), 'score_std': Value(dtype='float64', id=None), 'pval_std': Value(dtype='float64', id=None)}
because column names don't match
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 1433, in compute_config_parquet_and_info_response
parquet_operations, partial, estimated_dataset_info = stream_convert_to_parquet(
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 989, in stream_convert_to_parquet
builder._prepare_split(
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/builder.py", line 1741, in _prepare_split
for job_id, done, content in self._prepare_split_single(
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/builder.py", line 1872, in _prepare_split_single
raise DatasetGenerationCastError.from_cast_error(
datasets.exceptions.DatasetGenerationCastError: An error occurred while generating the dataset
All the data files must have the same columns, but at some point there are 4 new columns ({'pval', 'setsize', 'overlap', 'score'}) and 8 missing columns ({'setsize_std', 'overlap_mean', 'overlap_std', 'score_std', 'setsize_mean', 'score_mean', 'pval_std', 'pval_mean'}).
This happened while the csv dataset builder was generating data using
hf://datasets/ligdis/msigdb_gobp/fragment/C001/C001_val_log2fc/harmon.tsv (at revision 8ef6e851d3c0aaf2ee2822094f414b7df5861698)
Please either edit the data files to have matching columns, or separate them into different configurations (see docs at https://hf.co/docs/hub/datasets-manual-configuration#multiple-configurations)Need help to make the dataset viewer work? Make sure to review how to configure the dataset viewer, and open a discussion for direct support.
term
string | overlap_mean
float64 | setsize_mean
float64 | score_mean
float64 | pval_mean
float64 | overlap_std
float64 | setsize_std
float64 | score_std
float64 | pval_std
float64 |
|---|---|---|---|---|---|---|---|---|
10 formyltetrahydrofolate metabolic process
| 1.300971
| 3
| -0.087319
| 0.7062
| 0.901293
| 0
| 0.714509
| 0.288793
|
2 oxoglutarate metabolic process
| 3.453883
| 9.264563
| -0.106411
| 0.384613
| 2.299284
| 0.70049
| 1.26988
| 0.305049
|
2fe 2s cluster assembly
| 2.036408
| 3.240291
| -0.836457
| 0.407204
| 0.995687
| 0.705752
| 0.924104
| 0.301548
|
3 phosphoadenosine 5 phosphosulfate biosynthetic process
| 0.546117
| 2.169903
| 0.779783
| 0.420379
| 0.668508
| 0.457162
| 1.165348
| 0.315056
|
3 phosphoadenosine 5 phosphosulfate metabolic process
| 1.303398
| 4.133495
| 0.206958
| 0.523256
| 1.166976
| 0.913302
| 0.956994
| 0.3002
|
3 utr mediated mrna destabilization
| 2.461165
| 6.01699
| 0.426435
| 0.574577
| 1.539432
| 0.129235
| 0.7487
| 0.30582
|
3 utr mediated mrna stabilization
| 3.174757
| 7.847087
| 0.055673
| 0.615615
| 1.938006
| 1.001657
| 0.784094
| 0.290526
|
5 phosphoribose 1 diphosphate metabolic process
| 2.51699
| 4.11165
| -0.315847
| 0.484231
| 1.193511
| 0.75823
| 0.962745
| 0.303872
|
5s class rrna transcription by rna polymerase iii
| 2.330097
| 4.558252
| -0.29368
| 0.551322
| 1.297034
| 0.743258
| 0.834427
| 0.302448
|
Abscission
| 1.262136
| 3.067961
| 0.116346
| 0.631489
| 0.962513
| 0.717495
| 0.837221
| 0.310587
|
Acetyl coa biosynthetic process
| 4.082524
| 9.900485
| -0.470332
| 0.52417
| 2.19288
| 1.322802
| 0.818189
| 0.299515
|
Acetyl coa biosynthetic process from pyruvate
| 3.194175
| 6.958738
| -0.395704
| 0.518281
| 1.878898
| 1.093115
| 0.876144
| 0.303844
|
Acetyl coa metabolic process
| 6.303398
| 16.40534
| -1.552588
| 0.222004
| 2.900902
| 1.730164
| 0.969281
| 0.278869
|
Acid secretion
| 0.854321
| 2.54321
| -0.002524
| 0.462173
| 0.795675
| 1.135829
| 1.251313
| 0.321718
|
Acidic amino acid transport
| 4.514563
| 11.305825
| 0.109643
| 0.538602
| 2.69074
| 2.059471
| 0.952109
| 0.314811
|
Acrosomal vesicle exocytosis
| 0.333333
| 1
| 0.681084
| 0.090778
| 0.471405
| 0
| 2.051995
| 0.094739
|
Acrosome assembly
| 0.9202
| 1.857855
| -0.157782
| 0.470271
| 0.772737
| 0.877678
| 1.330369
| 0.33701
|
Acrosome reaction
| 0.193878
| 1
| 1.346039
| 0.127704
| 0.395334
| 0
| 1.807836
| 0.184578
|
Actin crosslink formation
| 1.07767
| 3.667476
| 0.257574
| 0.450932
| 1.177782
| 0.667273
| 1.07626
| 0.293869
|
Actin cytoskeleton reorganization
| 5.621359
| 24.531553
| 0.143272
| 0.656564
| 3.822815
| 2.772345
| 0.776202
| 0.307031
|
Actin filament based movement
| 7.128641
| 26.031553
| -0.129253
| 0.620542
| 3.744958
| 3.564452
| 0.820218
| 0.313099
|
Actin filament based process
| 49.893204
| 174.759709
| -0.53608
| 0.589511
| 18.685004
| 19.547007
| 0.902718
| 0.34356
|
Actin filament based transport
| 3.538835
| 7.609223
| -0.320326
| 0.53396
| 1.948598
| 1.310974
| 0.8717
| 0.305285
|
Actin filament bundle organization
| 12.876214
| 43.257282
| -0.388974
| 0.545762
| 7.149697
| 4.766573
| 0.961058
| 0.337044
|
Actin filament depolymerization
| 7.667476
| 20.466019
| -0.411687
| 0.553994
| 3.668762
| 1.750537
| 0.859204
| 0.314902
|
Actin filament network formation
| 2.06068
| 4.087379
| -0.815229
| 0.393406
| 0.974783
| 0.7453
| 0.930786
| 0.304431
|
Actin filament organization
| 33.337379
| 107.191748
| -0.654882
| 0.525917
| 13.266875
| 10.883078
| 1.089954
| 0.354048
|
Actin filament polymerization
| 10.881068
| 43.012136
| -0.059952
| 0.63213
| 5.979977
| 4.471305
| 0.868566
| 0.325175
|
Actin filament reorganization
| 0.384224
| 1.033079
| 0.383274
| 0.297897
| 0.491615
| 0.178843
| 1.65812
| 0.28049
|
Actin filament severing
| 3.774272
| 6.934466
| -0.565975
| 0.447897
| 1.664891
| 0.391755
| 0.921304
| 0.299916
|
Actin mediated cell contraction
| 3.975728
| 15.118932
| 0.034261
| 0.556003
| 2.183209
| 2.269025
| 0.857059
| 0.280943
|
Actin modification
| 0.759398
| 1.561404
| -0.059771
| 0.411068
| 0.695316
| 0.679535
| 1.444988
| 0.327392
|
Actin myosin filament sliding
| 0.650485
| 1.699029
| 0.451256
| 0.390389
| 0.656687
| 0.628374
| 1.435323
| 0.32271
|
Actin nucleation
| 5.470874
| 14.832524
| -0.544268
| 0.516378
| 3.019616
| 2.199649
| 0.798061
| 0.301297
|
Actin polymerization dependent cell motility
| 2.381068
| 3.900485
| -0.923427
| 0.3699
| 1.055697
| 0.384531
| 0.833884
| 0.282705
|
Actin polymerization or depolymerization
| 14.298544
| 50.276699
| -0.254315
| 0.586407
| 7.118327
| 5.153577
| 0.982051
| 0.341019
|
Action potential
| 5.135922
| 19.866505
| -0.052886
| 0.626077
| 2.550646
| 2.366667
| 0.802313
| 0.290006
|
Activated t cell proliferation
| 1.587379
| 5.587379
| 0.468889
| 0.502476
| 1.250101
| 1.067906
| 0.886921
| 0.306888
|
Activation induced cell death of t cells
| 1.206311
| 3.917476
| 0.363962
| 0.504061
| 1.04215
| 0.877433
| 0.945794
| 0.309395
|
Activation of adenylate cyclase activity
| 0.822816
| 1.694175
| -0.314103
| 0.439706
| 0.707219
| 0.614284
| 1.39155
| 0.336129
|
Activation of cysteine type endopeptidase activity
| 1.230583
| 3.152913
| -0.011416
| 0.537204
| 0.996468
| 1.20815
| 1.069121
| 0.325966
|
Activation of cysteine type endopeptidase activity involved in apoptotic process
| 3.708738
| 13.995146
| 0.58083
| 0.467389
| 1.735585
| 1.639908
| 0.866311
| 0.293823
|
Activation of cysteine type endopeptidase activity involved in apoptotic process by cytochrome c
| 0.526582
| 1.721519
| 0.778972
| 0.351777
| 0.645277
| 0.654811
| 1.541675
| 0.334629
|
Activation of gtpase activity
| 5.808252
| 17.657767
| -0.255052
| 0.606697
| 3.140656
| 2.927417
| 0.764245
| 0.295136
|
Activation of immune response
| 11.86165
| 46.934466
| 0.168642
| 0.731699
| 5.116391
| 4.945143
| 0.669577
| 0.302178
|
Activation of innate immune response
| 6.174757
| 19.628641
| 0.113672
| 0.707905
| 3.786607
| 2.147578
| 0.614506
| 0.27623
|
Activation of janus kinase activity
| 0.243902
| 1
| 0.955619
| 0.190155
| 0.429435
| 0
| 1.966395
| 0.249305
|
Activation of nf kappab inducing kinase activity
| 0.805825
| 2.029126
| 0.34341
| 0.374352
| 0.995702
| 1.269174
| 1.518065
| 0.339982
|
Activation of phospholipase c activity
| 1.17233
| 2.143204
| 0.061407
| 0.516323
| 0.73861
| 0.350281
| 1.230832
| 0.329644
|
Activation of phospholipase d activity
| 1.468447
| 2.966019
| -0.01386
| 0.599183
| 0.856995
| 0.25847
| 0.921108
| 0.310134
|
Activation of protein kinase activity
| 5.446602
| 16.851942
| -0.520278
| 0.574395
| 2.724318
| 3.606887
| 0.6482
| 0.283568
|
Activation of protein kinase b activity
| 1.48301
| 3.211165
| -0.604789
| 0.508338
| 0.854572
| 0.489275
| 0.881465
| 0.312148
|
Activation of protein kinase c activity
| 1.133495
| 2
| 0.053078
| 0.502654
| 0.678479
| 0
| 1.257853
| 0.331286
|
Activation of store operated calcium channel activity
| 0.446809
| 1.414894
| 0.706018
| 0.318318
| 0.518119
| 0.492704
| 1.679237
| 0.321304
|
Activin receptor signaling pathway
| 0.907767
| 2.84466
| 0.238014
| 0.548289
| 0.770347
| 0.686305
| 1.01024
| 0.319444
|
Actomyosin contractile ring organization
| 2.419903
| 4.93932
| -0.323902
| 0.568359
| 1.388543
| 0.923642
| 0.795451
| 0.295104
|
Actomyosin structure organization
| 15.917476
| 48.65534
| -0.422909
| 0.575321
| 7.057186
| 5.848213
| 0.94757
| 0.338705
|
Acute inflammatory response
| 1.446602
| 4.68932
| 0.928503
| 0.231565
| 0.949994
| 0.595764
| 1.213202
| 0.22698
|
Acute inflammatory response to antigenic stimulus
| 0.88835
| 1.012136
| -1.817153
| 0.111685
| 0.314936
| 0.109493
| 1.600126
| 0.186342
|
Acute phase response
| 0.475728
| 1.800971
| 0.826567
| 0.246976
| 0.596831
| 0.39927
| 1.681243
| 0.255714
|
Acyl carnitine transmembrane transport
| 0.084951
| 1.01699
| 2.216378
| 0.06263
| 0.287383
| 0.129235
| 1.598021
| 0.152789
|
Acylglycerol homeostasis
| 0.742718
| 2.929612
| 1.054655
| 0.293851
| 0.819555
| 0.860344
| 1.181152
| 0.25439
|
Acylglycerol transport
| 0.320896
| 1
| 0.621776
| 0.17352
| 0.466821
| 0
| 2.198791
| 0.256269
|
Adaptation of signaling pathway
| 0.475728
| 1.553398
| 0.66253
| 0.430077
| 0.61683
| 0.692935
| 1.222542
| 0.325223
|
Adaptive immune response
| 10.065534
| 42.351942
| 0.273358
| 0.605896
| 3.753714
| 4.529828
| 0.872617
| 0.327796
|
Adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains
| 7.757282
| 32.313107
| 0.141533
| 0.603746
| 3.504411
| 3.044416
| 0.874026
| 0.315788
|
Adaptive thermogenesis
| 4.645631
| 25.708738
| -0.639844
| 0.42055
| 3.292483
| 2.936648
| 0.99205
| 0.306922
|
Adenosine metabolic process
| 0.608273
| 1.642336
| 0.219228
| 0.332211
| 0.65797
| 0.479313
| 1.686417
| 0.308768
|
Adenosine to inosine editing
| 1.031553
| 1.776699
| -0.450923
| 0.476998
| 0.744869
| 0.695785
| 1.246929
| 0.344426
|
Adenylate cyclase activating adrenergic receptor signaling pathway
| 1.17284
| 2.903704
| -0.342571
| 0.414499
| 0.902536
| 0.821388
| 1.29229
| 0.309179
|
Adenylate cyclase activating adrenergic receptor signaling pathway involved in heart process
| 0.986979
| 2.09375
| -0.130951
| 0.469517
| 0.765355
| 0.715573
| 1.322853
| 0.330666
|
Adenylate cyclase activating dopamine receptor signaling pathway
| 0.741325
| 1.255521
| -0.526057
| 0.324382
| 0.585817
| 0.436153
| 1.650442
| 0.307973
|
Adenylate cyclase activating g protein coupled receptor signaling pathway
| 1.980583
| 5.936893
| -0.434286
| 0.461014
| 1.439597
| 1.791538
| 1.019925
| 0.309777
|
Adenylate cyclase inhibiting dopamine receptor signaling pathway
| 1.143204
| 2
| -0.622232
| 0.51507
| 0.562913
| 0
| 1.037566
| 0.315427
|
Adenylate cyclase inhibiting g protein coupled receptor signaling pathway
| 2.325243
| 8.313107
| -0.041082
| 0.491061
| 1.77114
| 0.943307
| 0.935748
| 0.262416
|
Adenylate cyclase modulating g protein coupled receptor signaling pathway
| 3.847087
| 14.407767
| -0.246948
| 0.521127
| 2.574787
| 2.966436
| 0.884173
| 0.272006
|
Adherens junction assembly
| 2.257282
| 4.087379
| -0.228584
| 0.623115
| 1.137115
| 0.377956
| 0.731792
| 0.285251
|
Adherens junction maintenance
| 1.15534
| 2.354369
| -0.036416
| 0.64847
| 0.756939
| 0.540276
| 0.895242
| 0.322631
|
Adherens junction organization
| 5.832524
| 12.919903
| -0.412408
| 0.551448
| 3.50639
| 1.000433
| 0.834223
| 0.314992
|
Adhesion of symbiont to host
| 0.466019
| 3.274272
| 0.622581
| 0.414013
| 0.82221
| 0.544182
| 0.964151
| 0.27657
|
Adhesion of symbiont to host cell
| 0.652913
| 1.291262
| -0.082905
| 0.411422
| 0.573201
| 0.519168
| 1.397728
| 0.312422
|
Adiponectin activated signaling pathway
| 1.143204
| 2.851942
| 0.153143
| 0.565054
| 0.85694
| 0.710477
| 1.028654
| 0.334355
|
Adipose tissue development
| 2.864078
| 10.633495
| 0.677321
| 0.441167
| 1.643159
| 1.800524
| 0.805022
| 0.285326
|
Adp biosynthetic process
| 1.691748
| 3.114078
| -0.39472
| 0.561056
| 1.028539
| 0.733456
| 0.909294
| 0.312609
|
Adp metabolic process
| 12.995146
| 32.162621
| -0.812527
| 0.475307
| 6.079168
| 2.558113
| 1.004471
| 0.349233
|
Adp transport
| 2.368932
| 4.201456
| 0.501994
| 0.348988
| 1.214718
| 0.418849
| 1.248361
| 0.30864
|
Adrenal gland development
| 0.553254
| 1.713018
| 0.432034
| 0.329829
| 0.64253
| 0.677541
| 1.746747
| 0.333411
|
Adrenergic receptor signaling pathway
| 1.288889
| 3.609877
| -0.296531
| 0.435871
| 1.010073
| 1.07078
| 1.178534
| 0.30742
|
Adult behavior
| 4.924757
| 19.364078
| 0.603194
| 0.411647
| 2.137658
| 2.190773
| 1.071812
| 0.309036
|
Adult heart development
| 0.659341
| 1.142857
| -0.416183
| 0.246155
| 0.539022
| 0.349927
| 1.895818
| 0.289328
|
Adult locomotory behavior
| 3.958738
| 14.822816
| 0.738991
| 0.338362
| 1.833016
| 1.487868
| 1.125459
| 0.28972
|
Aerobic respiration
| 23.075243
| 86.434466
| 0.468585
| 0.438126
| 10.546553
| 6.275478
| 1.570514
| 0.379286
|
Aggrephagy
| 1.009709
| 2.791262
| 0.21329
| 0.550447
| 0.870165
| 1.119172
| 1.0575
| 0.330207
|
Aggresome assembly
| 1.097087
| 1.703883
| -0.506105
| 0.508041
| 0.689935
| 0.552738
| 1.124015
| 0.337737
|
Aging
| 11.805825
| 65.502427
| -0.63411
| 0.539011
| 6.038804
| 7.519715
| 0.776882
| 0.331631
|
Alanine catabolic process
| 0.620853
| 1
| -0.357103
| 0.214328
| 0.485175
| 0
| 2.020434
| 0.259438
|
Alanine transport
| 0.504854
| 1.398058
| 0.587883
| 0.332756
| 0.56386
| 0.489498
| 1.568981
| 0.309783
|
Alcohol biosynthetic process
| 9.34466
| 36.09466
| 1.072668
| 0.353968
| 3.792896
| 3.107815
| 1.158778
| 0.341946
|
Alcohol catabolic process
| 2.63835
| 11.497573
| 0.239077
| 0.46951
| 1.683093
| 1.821526
| 0.95913
| 0.272976
|
Alcohol metabolic process
| 19.300971
| 81.990291
| 1.039262
| 0.393625
| 6.954896
| 7.403089
| 1.208379
| 0.375998
|
End of preview.