{
 "format": "oscr-script-manifest/1",
 "repository": "github.com/lbcb-sci/rinalmo",
 "url": "https://github.com/lbcb-sci/RiNALMo",
 "host": "github.com",
 "commit": "2c2c5c14a5ae609d8c560a5d9ca32e51e0288955",
 "license": "Apache-2.0",
 "license_confirmed_by": "license file LICENSE",
 "redistribution": "yes",
 "files": [
  {
   "path": "LICENSE",
   "sha256": "c71d239df91726fc519c6eb72d318ec65820627232b2f796219e87dcf35d0ab4",
   "language": "License",
   "lines": 201,
   "truncated": false,
   "block": 1,
   "row": 2216
  },
  {
   "path": "README.md",
   "sha256": "de3d60dd5aedc63c4f401a92876c2d1e053011e008773ce1be38511360463b63",
   "language": "Text",
   "lines": 166,
   "truncated": false,
   "block": 4,
   "row": 2635
  },
  {
   "path": "rinalmo/config.py",
   "sha256": "ec6cad89e85161f15d2e1d2b7a1582a7fd7bef650c26656fd5a7278134952b55",
   "language": "Python",
   "lines": 131,
   "truncated": false,
   "block": 3,
   "row": 22175
  },
  {
   "path": "rinalmo/data/alphabet.py",
   "sha256": "78f4b7f231ac3fc0e0f603ae362e012649883ffafce7925afd173a67ec55b97b",
   "language": "Python",
   "lines": 55,
   "truncated": false,
   "block": 3,
   "row": 19737
  },
  {
   "path": "rinalmo/data/constants.py",
   "sha256": "9fca2307b626465a3dcb65ec771b1f0413f404652b2f996a65e39f487c9ff1bc",
   "language": "Python",
   "lines": 19,
   "truncated": false,
   "block": 3,
   "row": 18342
  },
  {
   "path": "rinalmo/data/downstream/expression_level/datamodule.py",
   "sha256": "f0ae1c63d1683a1238861bff82359a4244f3d7e11b242cd787f5578027359a01",
   "language": "Python",
   "lines": 107,
   "truncated": false,
   "block": 3,
   "row": 21941
  },
  {
   "path": "rinalmo/data/downstream/expression_level/dataset.py",
   "sha256": "eef46a006a786a3452c54f86a013a1281beb1585a816f2ca79d478a0a56ca077",
   "language": "Python",
   "lines": 29,
   "truncated": false,
   "block": 3,
   "row": 18621
  },
  {
   "path": "rinalmo/data/downstream/ncrna_classification/datamodule.py",
   "sha256": "50b93cd3fdee8b8d5ebc7b3909523ac3ad91fce0958705816c78e4a50ea991a3",
   "language": "Python",
   "lines": 105,
   "truncated": false,
   "block": 3,
   "row": 21927
  },
  {
   "path": "rinalmo/data/downstream/ncrna_classification/dataset.py",
   "sha256": "f0ed1ae78629ad2d83a684e0d355b49fda24cfcb83b540b6b8fe8e861d6836a2",
   "language": "Python",
   "lines": 30,
   "truncated": false,
   "block": 3,
   "row": 18638
  },
  {
   "path": "rinalmo/data/downstream/ribosome_loading/datamodule.py",
   "sha256": "e3745374b508d248f155879182105abcfabcfe752ce42897c532c68492ca048c",
   "language": "Python",
   "lines": 68,
   "truncated": false,
   "block": 3,
   "row": 20478
  },
  {
   "path": "rinalmo/data/downstream/ribosome_loading/dataset.py",
   "sha256": "c9809fface0d78142a2b93ecc0d5559b07668de73b6c3d2b01efcd14720ee949",
   "language": "Python",
   "lines": 84,
   "truncated": false,
   "block": 3,
   "row": 21174
  },
  {
   "path": "rinalmo/data/downstream/secondary_structure/datamodule.py",
   "sha256": "c00b8cabb6ad96bdbaaf31bef6a7d161092fe0ee5c5f5511f3431d18558c5617",
   "language": "Python",
   "lines": 120,
   "truncated": false,
   "block": 3,
   "row": 22225
  },
  {
   "path": "rinalmo/data/downstream/secondary_structure/dataset.py",
   "sha256": "d45048738de614b820f46c2915cf1939e2dbcfa3a8536b10cee01468650a1051",
   "language": "Python",
   "lines": 43,
   "truncated": false,
   "block": 3,
   "row": 19408
  },
  {
   "path": "rinalmo/data/downstream/splice_site_prediction/datamodule.py",
   "sha256": "9f1bc5d0430d9b9b918eb66f3210c56f49b55185300349f0ded5d622b50e6be7",
   "language": "Python",
   "lines": 207,
   "truncated": false,
   "block": 3,
   "row": 25150
  },
  {
   "path": "rinalmo/data/downstream/splice_site_prediction/dataset.py",
   "sha256": "f8f10343191427bb679eea4841e60661c280c4d304677941871f778fd4005bbb",
   "language": "Python",
   "lines": 71,
   "truncated": false,
   "block": 3,
   "row": 19948
  },
  {
   "path": "rinalmo/data/downstream/translation_efficiency/datamodule.py",
   "sha256": "5a550d3a41f567509149032612f583890a7aaace68007f0977a66e66f2a9f52c",
   "language": "Python",
   "lines": 109,
   "truncated": false,
   "block": 3,
   "row": 21975
  },
  {
   "path": "rinalmo/data/downstream/translation_efficiency/dataset.py",
   "sha256": "d87f1ab847b18d43c042f124ec0e614d7fb24faf4538282493da9f0531f0636f",
   "language": "Python",
   "lines": 29,
   "truncated": false,
   "block": 3,
   "row": 18605
  },
  {
   "path": "rinalmo/model/attention.py",
   "sha256": "1b41e6afc98b9d65052b26ba5fecafc9ba9e9723fc4d67e2542ed774cf53b062",
   "language": "Python",
   "lines": 227,
   "truncated": false,
   "block": 3,
   "row": 25007
  },
  {
   "path": "rinalmo/model/downstream.py",
   "sha256": "deac7b6d20d160e7156238124882407226c4fc9870c8efee96f11cc56f6dee9e",
   "language": "Python",
   "lines": 188,
   "truncated": false,
   "block": 3,
   "row": 23444
  },
  {
   "path": "rinalmo/model/model.py",
   "sha256": "968fdea206848adb0ce641f0a677c57b4f0162d87aaa78a44265ad73e4b04625",
   "language": "Python",
   "lines": 39,
   "truncated": false,
   "block": 3,
   "row": 19551
  },
  {
   "path": "rinalmo/model/modules.py",
   "sha256": "897a1d01d32ec19b856705e60f2ab8121cdf7c6cc4ecf2b9247e9e9d8712a1a6",
   "language": "Python",
   "lines": 150,
   "truncated": false,
   "block": 3,
   "row": 23333
  },
  {
   "path": "rinalmo/model/rope.py",
   "sha256": "07701affc2b3eda20e61742c749f2c08a1c3006cb2d40e9ae02a58b7d45be698",
   "language": "Python",
   "lines": 45,
   "truncated": false,
   "block": 3,
   "row": 19563
  },
  {
   "path": "rinalmo/pretrained.py",
   "sha256": "6ee7e33c7f0392073ecd5cf43765492d2be44683238e8e4d3ecdef8fe1dc2836",
   "language": "Python",
   "lines": 32,
   "truncated": false,
   "block": 3,
   "row": 19292
  },
  {
   "path": "rinalmo/utils/download.py",
   "sha256": "01dc94713d876a093ce26f4f6bc48f28879db4e3fdfc09580aff66d72fd209a2",
   "language": "Python",
   "lines": 351,
   "truncated": false,
   "block": 3,
   "row": 26216
  },
  {
   "path": "rinalmo/utils/finetune_callback.py",
   "sha256": "738e8ed6697b46678549d17a190d3c905c1f7624473cfd6b380fde695db314fe",
   "language": "Python",
   "lines": 55,
   "truncated": false,
   "block": 3,
   "row": 20403
  },
  {
   "path": "rinalmo/utils/finetune_callback_nc.py",
   "sha256": "f45d0375425ad5cf865e7d3c428242ae15e6e8aace113769e182901c62235eff",
   "language": "Python",
   "lines": 93,
   "truncated": false,
   "block": 3,
   "row": 21817
  },
  {
   "path": "rinalmo/utils/ncrna_classification/ExpConfiguration.py",
   "sha256": "b704a7ba76cbc566e6ccb6601189fd00ca9e8477d890a72c28ba8f55a947039e",
   "language": "Python",
   "lines": 24,
   "truncated": false,
   "block": 3,
   "row": 18986
  },
  {
   "path": "rinalmo/utils/ncrna_classification/seqEncoders.py",
   "sha256": "77a0915ce94a72a17d55a9c92f2b6c2f1cf1fe5d959ffe83471c81f61ed7135b",
   "language": "Python",
   "lines": 222,
   "truncated": false,
   "block": 3,
   "row": 24166
  },
  {
   "path": "rinalmo/utils/prepare_mrna_te_and_el_data.py",
   "sha256": "c7efd87da91925daf86e4dfeb1802f5a9628861c32ad2557f3d72899da1b3ac3",
   "language": "Python",
   "lines": 42,
   "truncated": false,
   "block": 3,
   "row": 19680
  },
  {
   "path": "rinalmo/utils/prepare_ncrna_classification_data.py",
   "sha256": "3e45439c90310775ee7c9178187fcdbaefb4ff4ef80dbc94ab0fd840d0cf0387",
   "language": "Python",
   "lines": 339,
   "truncated": false,
   "block": 3,
   "row": 26231
  },
  {
   "path": "rinalmo/utils/scaler.py",
   "sha256": "56a74f2ed55eb87c605f05f625a2d6b422371ce9f75fc1408fac6a6186f0ad5b",
   "language": "Python",
   "lines": 32,
   "truncated": false,
   "block": 3,
   "row": 18985
  },
  {
   "path": "rinalmo/utils/sec_struct.py",
   "sha256": "75c971655e9a12cbbe18d3f75b8377303d0acc1795fab0f0253721ec14b750d0",
   "language": "Python",
   "lines": 214,
   "truncated": false,
   "block": 3,
   "row": 24241
  },
  {
   "path": "rinalmo/utils/splice_site_metrics.py",
   "sha256": "05dfaeae240707dad3957e0dcc776135141d874da4c1d38a0f9869aa5c4c60bf",
   "language": "Python",
   "lines": 21,
   "truncated": false,
   "block": 3,
   "row": 18409
  },
  {
   "path": "train_expression_level.py",
   "sha256": "09c2b6bd3758e3fb4e8f76ee92c58258b6e529c3a8e28c89839adfa16e893a74",
   "language": "Python",
   "lines": 382,
   "truncated": false,
   "block": 3,
   "row": 25997
  },
  {
   "path": "train_ncrna_classification.py",
   "sha256": "04e0308e0910f662c97042414bb479d42f5849247549153dda44b3ffa687aee9",
   "language": "Python",
   "lines": 399,
   "truncated": false,
   "block": 3,
   "row": 26003
  },
  {
   "path": "train_ribosome_loading.py",
   "sha256": "1eb0f9b7f1a6991d8960b98647594a35ebba3c6e509a12359c8fbeafe09f7615",
   "language": "Python",
   "lines": 358,
   "truncated": false,
   "block": 3,
   "row": 25748
  },
  {
   "path": "train_sec_struct_prediction.py",
   "sha256": "0731f2cbf45873edd6564dcb0c98ea1a8726b2cbc88f945f6dfa0d6cd6672e97",
   "language": "Python",
   "lines": 405,
   "truncated": false,
   "block": 3,
   "row": 26375
  },
  {
   "path": "train_splice_site_prediction.py",
   "sha256": "28530e8caf13ebf88c9e2d6e3a6bcc145d374e1e8d1016cced89e6a3fbff1da8",
   "language": "Python",
   "lines": 379,
   "truncated": false,
   "block": 3,
   "row": 25957
  },
  {
   "path": "train_translation_efficiency.py",
   "sha256": "94e27491a43d3360f25bbba3a4844d8e12e53ca7d76969f78a88cb31452efee4",
   "language": "Python",
   "lines": 382,
   "truncated": false,
   "block": 3,
   "row": 26001
  }
 ]
}