omnigenome 0.3.1a0__py3-none-any.whl → 0.3.3a0__py3-none-any.whl

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Files changed (79) hide show
  1. omnigenome/__init__.py +252 -266
  2. {omnigenome-0.3.1a0.dist-info → omnigenome-0.3.3a0.dist-info}/METADATA +9 -9
  3. omnigenome-0.3.3a0.dist-info/RECORD +7 -0
  4. omnigenome/auto/__init__.py +0 -3
  5. omnigenome/auto/auto_bench/__init__.py +0 -11
  6. omnigenome/auto/auto_bench/auto_bench.py +0 -494
  7. omnigenome/auto/auto_bench/auto_bench_cli.py +0 -230
  8. omnigenome/auto/auto_bench/auto_bench_config.py +0 -216
  9. omnigenome/auto/auto_bench/config_check.py +0 -34
  10. omnigenome/auto/auto_train/__init__.py +0 -12
  11. omnigenome/auto/auto_train/auto_train.py +0 -429
  12. omnigenome/auto/auto_train/auto_train_cli.py +0 -222
  13. omnigenome/auto/bench_hub/__init__.py +0 -11
  14. omnigenome/auto/bench_hub/bench_hub.py +0 -25
  15. omnigenome/cli/__init__.py +0 -12
  16. omnigenome/cli/commands/__init__.py +0 -12
  17. omnigenome/cli/commands/base.py +0 -83
  18. omnigenome/cli/commands/bench/__init__.py +0 -12
  19. omnigenome/cli/commands/bench/bench_cli.py +0 -202
  20. omnigenome/cli/commands/rna/__init__.py +0 -12
  21. omnigenome/cli/commands/rna/rna_design.py +0 -177
  22. omnigenome/cli/omnigenome_cli.py +0 -128
  23. omnigenome/src/__init__.py +0 -11
  24. omnigenome/src/abc/__init__.py +0 -11
  25. omnigenome/src/abc/abstract_dataset.py +0 -641
  26. omnigenome/src/abc/abstract_metric.py +0 -114
  27. omnigenome/src/abc/abstract_model.py +0 -690
  28. omnigenome/src/abc/abstract_tokenizer.py +0 -269
  29. omnigenome/src/dataset/__init__.py +0 -16
  30. omnigenome/src/dataset/omni_dataset.py +0 -437
  31. omnigenome/src/lora/__init__.py +0 -12
  32. omnigenome/src/lora/lora_model.py +0 -300
  33. omnigenome/src/metric/__init__.py +0 -15
  34. omnigenome/src/metric/classification_metric.py +0 -184
  35. omnigenome/src/metric/metric.py +0 -199
  36. omnigenome/src/metric/ranking_metric.py +0 -142
  37. omnigenome/src/metric/regression_metric.py +0 -191
  38. omnigenome/src/misc/__init__.py +0 -3
  39. omnigenome/src/misc/utils.py +0 -503
  40. omnigenome/src/model/__init__.py +0 -19
  41. omnigenome/src/model/augmentation/__init__.py +0 -11
  42. omnigenome/src/model/augmentation/model.py +0 -219
  43. omnigenome/src/model/classification/__init__.py +0 -11
  44. omnigenome/src/model/classification/model.py +0 -638
  45. omnigenome/src/model/embedding/__init__.py +0 -11
  46. omnigenome/src/model/embedding/model.py +0 -263
  47. omnigenome/src/model/mlm/__init__.py +0 -11
  48. omnigenome/src/model/mlm/model.py +0 -177
  49. omnigenome/src/model/module_utils.py +0 -232
  50. omnigenome/src/model/regression/__init__.py +0 -11
  51. omnigenome/src/model/regression/model.py +0 -781
  52. omnigenome/src/model/regression/resnet.py +0 -483
  53. omnigenome/src/model/rna_design/__init__.py +0 -11
  54. omnigenome/src/model/rna_design/model.py +0 -476
  55. omnigenome/src/model/seq2seq/__init__.py +0 -11
  56. omnigenome/src/model/seq2seq/model.py +0 -44
  57. omnigenome/src/tokenizer/__init__.py +0 -16
  58. omnigenome/src/tokenizer/bpe_tokenizer.py +0 -226
  59. omnigenome/src/tokenizer/kmers_tokenizer.py +0 -247
  60. omnigenome/src/tokenizer/single_nucleotide_tokenizer.py +0 -249
  61. omnigenome/src/trainer/__init__.py +0 -14
  62. omnigenome/src/trainer/accelerate_trainer.py +0 -747
  63. omnigenome/src/trainer/hf_trainer.py +0 -75
  64. omnigenome/src/trainer/trainer.py +0 -591
  65. omnigenome/utility/__init__.py +0 -3
  66. omnigenome/utility/dataset_hub/__init__.py +0 -12
  67. omnigenome/utility/dataset_hub/dataset_hub.py +0 -178
  68. omnigenome/utility/ensemble.py +0 -324
  69. omnigenome/utility/hub_utils.py +0 -517
  70. omnigenome/utility/model_hub/__init__.py +0 -11
  71. omnigenome/utility/model_hub/model_hub.py +0 -232
  72. omnigenome/utility/pipeline_hub/__init__.py +0 -11
  73. omnigenome/utility/pipeline_hub/pipeline.py +0 -483
  74. omnigenome/utility/pipeline_hub/pipeline_hub.py +0 -129
  75. omnigenome-0.3.1a0.dist-info/RECORD +0 -78
  76. {omnigenome-0.3.1a0.dist-info → omnigenome-0.3.3a0.dist-info}/WHEEL +0 -0
  77. {omnigenome-0.3.1a0.dist-info → omnigenome-0.3.3a0.dist-info}/entry_points.txt +0 -0
  78. {omnigenome-0.3.1a0.dist-info → omnigenome-0.3.3a0.dist-info}/licenses/LICENSE +0 -0
  79. {omnigenome-0.3.1a0.dist-info → omnigenome-0.3.3a0.dist-info}/top_level.txt +0 -0
omnigenome-0.3.1a0.dist-info/RECORD DELETED
@@ -1,78 +0,0 @@
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