OpenScientificCodeRegistry/Database

1{2 "format": "oscr-script-manifest/1",3 "repository": "github.com/phbradley/tcrdock",4 "url": "https://github.com/phbradley/TCRdock",5 "host": "github.com",6 "commit": "c5a7af42eeb0c2a4492a4d4fe803f1f9aafb6193",7 "license": "MIT",8 "license_confirmed_by": "license file LICENSE",9 "redistribution": "yes",10 "files": [11  {12   "path": "LICENSE",13   "sha256": "f4b2c02e59549d8b245b4c0883a0d29eb9769c98537055a3660672db944b5c6a",14   "language": "License",15   "lines": 21,16   "truncated": false,17   "block": 19,18   "row": 422719  },20  {21   "path": "README.md",22   "sha256": "35da26fea8d4ba549ebccd88c384ff1bd2469d77bfb89c835516f0660ad428f2",23   "language": "Text",24   "lines": 235,25   "truncated": false,26   "block": 19,27   "row": 1618128  },29  {30   "path": "add_pmhc_tcr_pae_to_tsvfile.py",31   "sha256": "24db6bd791abdae67c184645c054d2709f4662f015d69b8eed16e88513909fff",32   "language": "Python",33   "lines": 88,34   "truncated": false,35   "block": 19,36   "row": 1033737  },38  {39   "path": "algorithms_from_the_paper.py",40   "sha256": "6bdc4487d0af724d4b237e17e13fe06ffa2622698fced3b310b39e73ae88e199",41   "language": "Python",42   "lines": 43,43   "truncated": false,44   "block": 19,45   "row": 957046  },47  {48   "path": "alphafold/__init__.py",49   "sha256": "81d285f77e444308aaf387bf06ecbbf7ccca4461d62db3e9ad9fe462393e5d82",50   "language": "Python",51   "lines": 14,52   "truncated": false,53   "block": 3,54   "row": 1856955  },56  {57   "path": "alphafold/common/__init__.py",58   "sha256": "144c001f817a11c018cb618354e7fb67e52cd76d01b74667b02fc0657a5874e7",59   "language": "Python",60   "lines": 14,61   "truncated": false,62   "block": 3,63   "row": 1855664  },65  {66   "path": "alphafold/common/confidence.py",67   "sha256": "071f26648e4600a2c3df176b10bd62579adc2304b219a3f8a7196558f87e1ba1",68   "language": "Python",69   "lines": 233,70   "truncated": false,71   "block": 19,72   "row": 1285973  },74  {75   "path": "alphafold/common/confidence_test.py",76   "sha256": "3696ef23029eaf25bb9ab62a0ce080519f6fe3f7d6581ab1eb1df04db3d1a3e3",77   "language": "Python",78   "lines": 48,79   "truncated": false,80   "block": 19,81   "row": 948882  },83  {84   "path": "alphafold/common/mmcif_metadata.py",85   "sha256": "df5fededd480e977efd57690c47b302a2fda1fed7d8b1d9837935ee2edc4f89c",86   "language": "Python",87   "lines": 213,88   "truncated": false,89   "block": 7,90   "row": 19491  },92  {93   "path": "alphafold/common/protein.py",94   "sha256": "f9a8e7f52502460aced6dab9c50ef79be79bb6872b7f633c2afe10262ea92e32",95   "language": "Python",96   "lines": 579,97   "truncated": false,98   "block": 19,99   "row": 14156100  },101  {102   "path": "alphafold/common/protein_test.py",103   "sha256": "4d6ffc8d1ee956e382338bb35a601882c7bf40038938d9c31ad190051058d094",104   "language": "Python",105   "lines": 153,106   "truncated": false,107   "block": 19,108   "row": 12166109  },110  {111   "path": "alphafold/common/residue_constants.py",112   "sha256": "a3a0b870b132416c0374b5508154d6b7bc818abf9e969accb8f41e0cc02b2e7d",113   "language": "Python",114   "lines": 927,115   "truncated": false,116   "block": 19,117   "row": 14468118  },119  {120   "path": "alphafold/common/residue_constants_test.py",121   "sha256": "4bbf7bb02ee3d8b4555fea852a6867d26c9d825dbe26e90ce12bcdf3388a6fca",122   "language": "Python",123   "lines": 190,124   "truncated": false,125   "block": 3,126   "row": 25063127  },128  {129   "path": "alphafold/data/__init__.py",130   "sha256": "9fbad6d49a22e5687eba7f57058bbbbe75f6248997ca51f83cceb6071db65b1d",131   "language": "Python",132   "lines": 14,133   "truncated": false,134   "block": 3,135   "row": 18535136  },137  {138   "path": "alphafold/data/feature_processing.py",139   "sha256": "9ba5d5c818adcf33817aa33a0d94d4fa9ba120a844bfd7d158e000976dbbbe52",140   "language": "Python",141   "lines": 229,142   "truncated": false,143   "block": 19,144   "row": 12961145  },146  {147   "path": "alphafold/data/mmcif_parsing.py",148   "sha256": "5ecd48c7b55eeb44f8d33c254cc5602bdb430d66f1af6dc42e9201d25af95729",149   "language": "Python",150   "lines": 386,151   "truncated": false,152   "block": 19,153   "row": 13735154  },155  {156   "path": "alphafold/data/msa_identifiers.py",157   "sha256": "764d0267cbf37ca6b5f6c9f257c4f96c592df51636c0aef5d64478780daee7d8",158   "language": "Python",159   "lines": 90,160   "truncated": false,161   "block": 3,162   "row": 21215163  },164  {165   "path": "alphafold/data/msa_pairing.py",166   "sha256": "bb5e1725cdd417dca26448d58a07dda553d333c1c3735d41efdd4861d09fe5d9",167   "language": "Python",168   "lines": 459,169   "truncated": false,170   "block": 19,171   "row": 13955172  },173  {174   "path": "alphafold/data/parsers.py",175   "sha256": "96717ff3f6de8f94382077048925856596b8ef55e49f91d61dca8c60331cabbb",176   "language": "Python",177   "lines": 613,178   "truncated": false,179   "block": 7,180   "row": 9022181  },182  {183   "path": "alphafold/data/pipeline.py",184   "sha256": "10b6ba4c8c5a8fd9154dcee4012496fdbeac13fd9d3a57d9858390380bd92550",185   "language": "Python",186   "lines": 243,187   "truncated": false,188   "block": 19,189   "row": 13275190  },191  {192   "path": "alphafold/data/pipeline_multimer.py",193   "sha256": "16402ec6acefa60063aa3c06a0d0bcec039e69f27d5ba62f1e03694079b2f50a",194   "language": "Python",195   "lines": 284,196   "truncated": false,197   "block": 19,198   "row": 13374199  },200  {201   "path": "alphafold/data/templates.py",202   "sha256": "acbbbb96ec0420138cc85615cee1d10cc0aaf068ab76113deb3ba97414d2e703",203   "language": "Python",204   "lines": 1011,205   "truncated": false,206   "block": 19,207   "row": 14522208  },209  {210   "path": "alphafold/data/tools/__init__.py",211   "sha256": "99b6dc388add0ed76fba35e40cf36a64f17e88f5b830dd7eaee48853c92f4c31",212   "language": "Python",213   "lines": 14,214   "truncated": false,215   "block": 3,216   "row": 18544217  },218  {219   "path": "alphafold/data/tools/hhblits.py",220   "sha256": "d1d4caed52fe9fe061d015ef3c2b29521b716894b07e28dac3c7d27e6d42c7fe",221   "language": "Python",222   "lines": 155,223   "truncated": false,224   "block": 3,225   "row": 23293226  },227  {228   "path": "alphafold/data/tools/hhsearch.py",229   "sha256": "716235ef6382b1647355bebfdce125e3574262b42fd2ac5a0f3c71b0c211ab3e",230   "language": "Python",231   "lines": 107,232   "truncated": false,233   "block": 3,234   "row": 21814235  },236  {237   "path": "alphafold/data/tools/hmmbuild.py",238   "sha256": "2e72d4e5e41eb58aee141f4e007b33b1ed5c4c1ad2c7cda1e9d175ca1a56efc3",239   "language": "Python",240   "lines": 138,241   "truncated": false,242   "block": 3,243   "row": 22635244  },245  {246   "path": "alphafold/data/tools/hmmsearch.py",247   "sha256": "5f5504b40b95a87f059346d1da0131980e1abd5e576338fb673f400b6d8151c5",248   "language": "Python",249   "lines": 131,250   "truncated": false,251   "block": 3,252   "row": 22624253  },254  {255   "path": "alphafold/data/tools/jackhmmer.py",256   "sha256": "5d5fcffa2cf28fc42bf50dff556c2d540858b1a8c811ecd980e38dce9c759f8c",257   "language": "Python",258   "lines": 221,259   "truncated": false,260   "block": 3,261   "row": 24718262  },263  {264   "path": "alphafold/data/tools/kalign.py",265   "sha256": "62b03ea317bfe63f33812a3cfed44f9cc3271a233022e6549055437fa8f9caa9",266   "language": "Python",267   "lines": 104,268   "truncated": false,269   "block": 3,270   "row": 21639271  },272  {273   "path": "alphafold/data/tools/utils.py",274   "sha256": "e64ec392a2be1c706afee0eee41cfbe39c2b7fa1dad864c364fbe3be3689cfdc",275   "language": "Python",276   "lines": 40,277   "truncated": false,278   "block": 3,279   "row": 19245280  },281  {282   "path": "alphafold/model/__init__.py",283   "sha256": "a237ba59c7c0a012e927739e8b3e984b283f696af466dddab2d920c3aac087be",284   "language": "Python",285   "lines": 14,286   "truncated": false,287   "block": 3,288   "row": 18510289  },290  {291   "path": "alphafold/model/all_atom.py",292   "sha256": "ec1a2df861a872e6319c714c92cd82d1e7954054062699176ce2f0416d8d03c9",293   "language": "Python",294   "lines": 1141,295   "truncated": false,296   "block": 3,297   "row": 27930298  },299  {300   "path": "alphafold/model/all_atom_multimer.py",301   "sha256": "f3f885b00b3c2cce8f7ccb74fc1e57d2cca50390bfb977b6cf7260974bfd2479",302   "language": "Python",303   "lines": 968,304   "truncated": false,305   "block": 19,306   "row": 14516307  },308  {309   "path": "alphafold/model/all_atom_test.py",310   "sha256": "972917f797fc47d4b8dbf6e921b951e18aa05e0685c327ec6f31b802065c3880",311   "language": "Python",312   "lines": 135,313   "truncated": false,314   "block": 3,315   "row": 22718316  },317  {318   "path": "alphafold/model/common_modules.py",319   "sha256": "bd4ed661d9dcd67b3f0bbbc96c641142daa793364dac08e9bb320d3c86c87eec",320   "language": "Python",321   "lines": 191,322   "truncated": false,323   "block": 3,324   "row": 23549325  },326  {327   "path": "alphafold/model/config.py",328   "sha256": "7b53395e6e936f8f62f5ffa9e88fcb089f9ef96c156835cfbb49b5d2f94f1534",329   "language": "Python",330   "lines": 699,331   "truncated": false,332   "block": 3,333   "row": 27455334  },335  {336   "path": "alphafold/model/data.py",337   "sha256": "893b1f013be9f1dbcaf84d0ea9e73268d6a0356b6f8523f818761632630c2673",338   "language": "Python",339   "lines": 33,340   "truncated": false,341   "block": 3,342   "row": 19102343  },344  {345   "path": "alphafold/model/features.py",346   "sha256": "ecd6cc5b1ac5c3e5ebeb625fc1c6bab11b4a9647558cf036155b9316cba73d47",347   "language": "Python",348   "lines": 106,349   "truncated": false,350   "block": 19,351   "row": 10941352  },353  {354   "path": "alphafold/model/folding.py",355   "sha256": "71bafd2f98676b9f231a73d0d4b42d7e93969d1d25611d7a69fb742832318ff7",356   "language": "Python",357   "lines": 1009,358   "truncated": false,359   "block": 3,360   "row": 27778361  },362  {363   "path": "alphafold/model/folding_multimer.py",364   "sha256": "dd5412ce86e38c8c36d266d2feeb52b8f80161241c10827f4b4bd68349f13572",365   "language": "Python",366   "lines": 1162,367   "truncated": false,368   "block": 19,369   "row": 14533370  },371  {372   "path": "alphafold/model/geometry/__init__.py",373   "sha256": "7958376e4a4c32c8a973ce2fa94d68fbe93e4e6e0d626d78bccfc0242a75de41",374   "language": "Python",375   "lines": 31,376   "truncated": false,377   "block": 3,378   "row": 19181379  },380  {381   "path": "alphafold/model/geometry/rigid_matrix_vector.py",382   "sha256": "e485a90e6af521938c9f7aa307dd78bafaadff78249b654c21299ba297a67fc0",383   "language": "Python",384   "lines": 106,385   "truncated": false,386   "block": 3,387   "row": 22318388  },389  {390   "path": "alphafold/model/geometry/rotation_matrix.py",391   "sha256": "8b7130fd7d720e78576712a24747ddf99072f378b3709699a4d1200b46da1bf5",392   "language": "Python",393   "lines": 157,394   "truncated": false,395   "block": 3,396   "row": 23432397  },398  {399   "path": "alphafold/model/geometry/struct_of_array.py",400   "sha256": "4e7c144fcbbcf5d795545b5ec4db346f61e2f89a6f53ddaa585e8c5162342ec7",401   "language": "Python",402   "lines": 220,403   "truncated": false,404   "block": 3,405   "row": 24428406  },407  {408   "path": "alphafold/model/geometry/test_utils.py",409   "sha256": "244503b7528e57e5a5b4ff77f7e6e9510eb045d79f5343d3f788921b838a65af",410   "language": "Python",411   "lines": 98,412   "truncated": false,413   "block": 3,414   "row": 22340415  },416  {417   "path": "alphafold/model/geometry/utils.py",418   "sha256": "5a804893aa0edc2b3e1daad50fc5ea693c4f44f2496f2d67073f4c0ebf15d293",419   "language": "Python",420   "lines": 23,421   "truncated": false,422   "block": 3,423   "row": 18814424  },425  {426   "path": "alphafold/model/geometry/vector.py",427   "sha256": "d48c2f013a4792262604960434cb9a5b2cd773127ace9b9b87782b6e2b4955a6",428   "language": "Python",429   "lines": 217,430   "truncated": false,431   "block": 3,432   "row": 24016433  },434  {435   "path": "alphafold/model/layer_stack.py",436   "sha256": "0fd8863656fa6c9b069569343eed823977cfcc87b5a3f8e12ae8e54a2451c4db",437   "language": "Python",438   "lines": 274,439   "truncated": false,440   "block": 3,441   "row": 25025442  },443  {444   "path": "alphafold/model/layer_stack_test.py",445   "sha256": "b60da4d16300f4116c8e4027ae079f7b2fad2d0955a814d1323379b4f3a6bb2e",446   "language": "Python",447   "lines": 335,448   "truncated": false,449   "block": 3,450   "row": 25441451  },452  {453   "path": "alphafold/model/lddt.py",454   "sha256": "22ebd462ad0493489fb0813fbb5392c4b26cca8807598c8ca12cf10e2ffa991d",455   "language": "Python",456   "lines": 88,457   "truncated": false,458   "block": 3,459   "row": 21737460  },461  {462   "path": "alphafold/model/lddt_test.py",463   "sha256": "f1540d875ff7aae4d8430b6a7b17b300ccf72d731e0c259517a8b8ced5b08ab0",464   "language": "Python",465   "lines": 79,466   "truncated": false,467   "block": 3,468   "row": 20609469  },470  {471   "path": "alphafold/model/mapping.py",472   "sha256": "9bb2bc5a3e412876bab62603387f7e51eda938808b9cfb3b92fd1180a3bc279e",473   "language": "Python",474   "lines": 223,475   "truncated": false,476   "block": 3,477   "row": 24527478  },479  {480   "path": "alphafold/model/model.py",481   "sha256": "420189cb2b4376409e1fafc439fa4c0069777e1b77211d17d5d560d3422e90d6",482   "language": "Python",483   "lines": 177,484   "truncated": false,485   "block": 19,486   "row": 12446487  },488  {489   "path": "alphafold/model/modules.py",490   "sha256": "e1258a797d122ba19786230ab9626d42aedc419793cda449c0277ff6c80e9d43",491   "language": "Python",492   "lines": 2195,493   "truncated": false,494   "block": 19,495   "row": 14614496  },497  {498   "path": "alphafold/model/modules_multimer.py",499   "sha256": "b4cf8dff99d4461454602be64367f455ffb60355e53a1f3504845c1502428727",500   "language": "Python",501   "lines": 1178,502   "truncated": false,503   "block": 3,504   "row": 27875505  },506  {507   "path": "alphafold/model/prng.py",508   "sha256": "09e62b8b2c24a2aa41704c0b474bfa45cc1b5a9121bf9d883232278de25f2a33",509   "language": "Python",510   "lines": 69,511   "truncated": false,512   "block": 3,513   "row": 20143514  },515  {516   "path": "alphafold/model/prng_test.py",517   "sha256": "c7c603d8d59178914bd8ac15fe2faa29b25cf44ff49a15de1384b7123c199dec",518   "language": "Python",519   "lines": 45,520   "truncated": false,521   "block": 19,522   "row": 9347523  },524  {525   "path": "alphafold/model/quat_affine.py",526   "sha256": "dfc1d3e3df0e1966ed361f4dbaf9fc59fd525a8458bb7c4187c9c70d168ef749",527   "language": "Python",528   "lines": 459,529   "truncated": false,530   "block": 3,531   "row": 26768532  },533  {534   "path": "alphafold/model/quat_affine_test.py",535   "sha256": "73702f5f680a96a64507edb91ba9b6f9908f0348574727717fde46dc9015dd40",536   "language": "Python",537   "lines": 150,538   "truncated": false,539   "block": 3,540   "row": 22973541  },542  {543   "path": "alphafold/model/r3.py",544   "sha256": "706df39f3f0c411bc2d7d422e2963305fb8d3e2d4d44b02ac50af99296df1cf8",545   "language": "Python",546   "lines": 320,547   "truncated": false,548   "block": 3,549   "row": 25615550  },551  {552   "path": "alphafold/model/tf/__init__.py",553   "sha256": "7ee47be79cc30b61cf7111de0d29f6fa5e15737c741145502e998ff7b657ba05",554   "language": "Python",555   "lines": 14,556   "truncated": false,557   "block": 3,558   "row": 18534559  },560  {561   "path": "alphafold/model/tf/data_transforms.py",562   "sha256": "e5518928e0595b0c85275221ce44018351672cbccf78d887e420ed104a1f97cd",563   "language": "Python",564   "lines": 625,565   "truncated": false,566   "block": 3,567   "row": 27159568  },569  {570   "path": "alphafold/model/tf/input_pipeline.py",571   "sha256": "8e0a024f02f1e155bc207ce757ae8528331d601a39bfc28175f869fb6bd84c57",572   "language": "Python",573   "lines": 166,574   "truncated": false,575   "block": 3,576   "row": 23203577  },578  {579   "path": "alphafold/model/tf/protein_features.py",580   "sha256": "d10a8d7e38394744cfc9123ff872dd12a879c292866fefa989434797013cce3e",581   "language": "Python",582   "lines": 129,583   "truncated": false,584   "block": 3,585   "row": 22991586  },587  {588   "path": "alphafold/model/tf/protein_features_test.py",589   "sha256": "4a93652817daafc8bbda99a33fae9214ebfa8b3fed97aab3217c286f5922f773",590   "language": "Python",591   "lines": 54,592   "truncated": false,593   "block": 3,594   "row": 19965595  },596  {597   "path": "alphafold/model/tf/proteins_dataset.py",598   "sha256": "8c9c2ef93e3ce23dd510c394090e0f5534dc8359cf7914a4825a226930d8a918",599   "language": "Python",600   "lines": 166,601   "truncated": false,602   "block": 3,603   "row": 23755604  },605  {606   "path": "alphafold/model/tf/shape_helpers.py",607   "sha256": "0bdb468834e3f022d362c08d79f6f2a8f472120b0b660d3cd619d97721a84de1",608   "language": "Python",609   "lines": 47,610   "truncated": false,611   "block": 3,612   "row": 19463613  },614  {615   "path": "alphafold/model/tf/shape_helpers_test.py",616   "sha256": "2abbbc95655b59a98d343a0f01b4b167c6d38b17323c13b0b0b73fcd9bf9ac6d",617   "language": "Python",618   "lines": 42,619   "truncated": false,620   "block": 3,621   "row": 19353622  },623  {624   "path": "alphafold/model/tf/shape_placeholders.py",625   "sha256": "91457589ca3a16036ecd51b9674f8c3933492841be81f02eb9ddcfb206df1c87",626   "language": "Python",627   "lines": 20,628   "truncated": false,629   "block": 3,630   "row": 18759631  },632  {633   "path": "alphafold/model/tf/utils.py",634   "sha256": "cbee68e094dd27c7cd5f1baf79daa4883af7a50a9ba2f6d190e183281804909a",635   "language": "Python",636   "lines": 47,637   "truncated": false,638   "block": 3,639   "row": 19308640  },641  {642   "path": "alphafold/model/utils.py",643   "sha256": "0c155fedcf0ad698db7c9cd932760de4296589c5d55f2a7c9704c932743e1387",644   "language": "Python",645   "lines": 173,646   "truncated": false,647   "block": 19,648   "row": 12029649  },650  {651   "path": "alphafold/notebooks/__init__.py",652   "sha256": "3a0f9738a3587ec7d758ec64eb227dc913d26341f381e805b409ef9043443a9d",653   "language": "Python",654   "lines": 14,655   "truncated": false,656   "block": 3,657   "row": 18522658  },659  {660   "path": "alphafold/notebooks/notebook_utils.py",661   "sha256": "21e2a125f11c123550ca3a57f1406c978240ec9c3e25dfcd93544689514b19af",662   "language": "Python",663   "lines": 163,664   "truncated": false,665   "block": 19,666   "row": 12449667  },668  {669   "path": "alphafold/notebooks/notebook_utils_test.py",670   "sha256": "099a4e5f7b62c662a7a6f6b3662a31efad9a3a24b3dc8755ceff5892457c0bde",671   "language": "Python",672   "lines": 201,673   "truncated": false,674   "block": 19,675   "row": 13085676  },677  {678   "path": "alphafold/relax/__init__.py",679   "sha256": "0b52f881c1ab7a485ad2fc581d2c42c486c54f6b5ec00a46b7f3ceed0e786e3b",680   "language": "Python",681   "lines": 14,682   "truncated": false,683   "block": 3,684   "row": 18511685  },686  {687   "path": "alphafold/relax/amber_minimize.py",688   "sha256": "a280d11727456f50b41f262263f31eb6d46d403b928d3ac31311dd5aae6c765a",689   "language": "Python",690   "lines": 505,691   "truncated": false,692   "block": 19,693   "row": 14079694  },695  {696   "path": "alphafold/relax/amber_minimize_test.py",697   "sha256": "2bf127a782e6d6ea6059ddb043a7626f14aa967e441b3e84feb23bbfdde044b7",698   "language": "Python",699   "lines": 133,700   "truncated": false,701   "block": 3,702   "row": 22479703  },704  {705   "path": "alphafold/relax/cleanup.py",706   "sha256": "c8a3c31190961725435ea6eb3deb3c81bb6a80dc5526359626599c9838e85834",707   "language": "Python",708   "lines": 127,709   "truncated": false,710   "block": 19,711   "row": 11676712  },713  {714   "path": "alphafold/relax/cleanup_test.py",715   "sha256": "b0885c78ead03a5ad2a88b4a5c8ab99d4efcb48b9a679fd7d3d2f474a8cf52c5",716   "language": "Python",717   "lines": 137,718   "truncated": false,719   "block": 19,720   "row": 12298721  },722  {723   "path": "alphafold/relax/relax.py",724   "sha256": "7b4c453dcb170a6e842f66a5f5e6e2bcc4151958a24e1d2329fecf1a6a15f87a",725   "language": "Python",726   "lines": 84,727   "truncated": false,728   "block": 3,729   "row": 21549730  },731  {732   "path": "alphafold/relax/relax_test.py",733   "sha256": "cf652c16e7dd8ef13f63b620acc8597daf5caffa52cf19ce669cff8b08307706",734   "language": "Python",735   "lines": 89,736   "truncated": false,737   "block": 3,738   "row": 22020739  },740  {741   "path": "alphafold/relax/utils.py",742   "sha256": "07cd0d6f460fcee1857d7011eb5024458ece1742828b4cf8f27f6c9541465b57",743   "language": "Python",744   "lines": 69,745   "truncated": false,746   "block": 3,747   "row": 20739748  },749  {750   "path": "alphafold/relax/utils_test.py",751   "sha256": "ac521509807ce0fec8ca61bb1dcca2a5ce993bfef7bf9da14bfc6bd0527acf5a",752   "language": "Python",753   "lines": 55,754   "truncated": false,755   "block": 3,756   "row": 20162757  },758  {759   "path": "alphafold/version.py",760   "sha256": "88fbefcabf0d0c0255a946057c26e635fa6453b541d5058707c00efaf1323453",761   "language": "Python",762   "lines": 17,763   "truncated": false,764   "block": 6,765   "row": 23730766  },767  {768   "path": "compute_docking_rmsds.py",769   "sha256": "42e817c2034ad0c4170e46e8f38d9a66fc6f98e5dfa0d93364a3aba73b429594",770   "language": "Python",771   "lines": 51,772   "truncated": false,773   "block": 19,774   "row": 9714775  },776  {777   "path": "compute_tcrdists.py",778   "sha256": "db176da9abb2d978aebedd91efdb78e61365a7a814ead785e8f551b0b9ffed17",779   "language": "Python",780   "lines": 78,781   "truncated": false,782   "block": 19,783   "row": 10267784  },785  {786   "path": "download_blast.py",787   "sha256": "ca5a7925ebe9ea1c63faf9bf72beb509abe61124118ea16f86a6992058b9f038",788   "language": "Python",789   "lines": 69,790   "truncated": false,791   "block": 19,792   "row": 9769793  },794  {795   "path": "parse_tcr_pmhc_pdbfile.py",796   "sha256": "8b5a757fd771dafef70fd0b5b6ae1b4c66b1bd4ffc687c3e92edc711df55b182",797   "language": "Python",798   "lines": 95,799   "truncated": false,800   "block": 19,801   "row": 10916802  },803  {804   "path": "predict_utils.py",805   "sha256": "431e3b16f7393ecab75fa003feb444a7b3e85a73201eda09fbf914fc4415aa2a",806   "language": "Python",807   "lines": 559,808   "truncated": false,809   "block": 19,810   "row": 14198811  },812  {813   "path": "run_prediction.py",814   "sha256": "e5c2e295c9420ace6f77ac5cf4b1f2fcc411465b88dc19531410ed91a7f91614",815   "language": "Python",816   "lines": 210,817   "truncated": false,818   "block": 19,819   "row": 12896820  },821  {822   "path": "setup_for_alphafold.py",823   "sha256": "871a25dbb464658184b56567fedcefb0b778376231f11cb4f27a8cfc3185ece8",824   "language": "Python",825   "lines": 131,826   "truncated": false,827   "block": 19,828   "row": 11963829  },830  {831   "path": "tcrdock/__init__.py",832   "sha256": "03b6194131ebd715bea7e8b50e3c4e64316790736354a06727306471f9481c87",833   "language": "Python",834   "lines": 15,835   "truncated": false,836   "block": 19,837   "row": 8828838  },839  {840   "path": "tcrdock/blast.py",841   "sha256": "53b80af5145d8dd37a446a77636472b821b5a1eeb1655624e0de4056026cd1cd",842   "language": "Python",843   "lines": 110,844   "truncated": false,845   "block": 19,846   "row": 10628847  },848  {849   "path": "tcrdock/docking_geometry.py",850   "sha256": "aa6e02a6ebc596490f5fb0d8c64c98181b06f5193c4b85dd8d6eb6931b852a3c",851   "language": "Python",852   "lines": 389,853   "truncated": false,854   "block": 19,855   "row": 13596856  },857  {858   "path": "tcrdock/geom_util.py",859   "sha256": "9f1e9698dfc394a2c0f61b53cce7beb11777558e32bdb2a5731f5f606f8b6941",860   "language": "Python",861   "lines": 104,862   "truncated": false,863   "block": 19,864   "row": 10215865  },866  {867   "path": "tcrdock/mhc_util.py",868   "sha256": "6344555c20d8845749d421c100906a5a4c02c2d0bea8f18d4fb2f139ade69b19",869   "language": "Python",870   "lines": 262,871   "truncated": false,872   "block": 19,873   "row": 12923874  },875  {876   "path": "tcrdock/pdb_util.py",877   "sha256": "82e2e845912f1caf2a172f889a712ef3dede081414cef335b830466712eb567e",878   "language": "Python",879   "lines": 128,880   "truncated": false,881   "block": 19,882   "row": 11570883  },884  {885   "path": "tcrdock/pdblite.py",886   "sha256": "5d21c0ffc4f2dfeaa9e259d30c4c6280041b82e8a96f9beab4f78d058742972c",887   "language": "Python",888   "lines": 432,889   "truncated": false,890   "block": 19,891   "row": 13686892  },893  {894   "path": "tcrdock/sequtil.py",895   "sha256": "02fbb519f0061cab589e926254949bf4f84836422f3ab160514b8fa27d30d354",896   "language": "Python",897   "lines": 1904,898   "truncated": false,899   "block": 19,900   "row": 14615901  },902  {903   "path": "tcrdock/setup.py",904   "sha256": "d9941186e2636b1bf4e8c210779f8f7cb313eb8ad4b5ef2f2f53ee40018dd528",905   "language": "Python",906   "lines": 102,907   "truncated": false,908   "block": 19,909   "row": 10953910  },911  {912   "path": "tcrdock/superimpose.py",913   "sha256": "fc60c97318789b3406d72c40575cbd22c1745395748ef92d4129f480b84e4fc8",914   "language": "Python",915   "lines": 153,916   "truncated": false,917   "block": 19,918   "row": 11107919  },920  {921   "path": "tcrdock/tcr_util.py",922   "sha256": "9b5d933fff8eea9d088923953eb0c993b5effbd22e2638c94e192f849fdf30f0",923   "language": "Python",924   "lines": 225,925   "truncated": false,926   "block": 19,927   "row": 12813928  },929  {930   "path": "tcrdock/tcrdist/__init__.py",931   "sha256": "c34454a3c4df20a0dde460ceaa29371a38eb09dce7f28a48406a49897f579356",932   "language": "Python",933   "lines": 6,934   "truncated": false,935   "block": 19,936   "row": 8624937  },938  {939   "path": "tcrdock/tcrdist/all_genes.py",940   "sha256": "02c56b70dcde690677303f756220cf923366fdb069533545d07cdc995f68cc9d",941   "language": "Python",942   "lines": 281,943   "truncated": false,944   "block": 19,945   "row": 13469946  },947  {948   "path": "tcrdock/tcrdist/amino_acids.py",949   "sha256": "c8512b917b5ced2160b741024a3164cbb8bbba6448871c34898927724ff0e90f",950   "language": "Python",951   "lines": 62,952   "truncated": false,953   "block": 19,954   "row": 9934955  },956  {957   "path": "tcrdock/tcrdist/basic.py",958   "sha256": "5d28665443c2bcf8916f64bdc30cd2f416187d37ac2fee597105730adebb4176",959   "language": "Python",960   "lines": 45,961   "truncated": false,962   "block": 19,963   "row": 9295964  },965  {966   "path": "tcrdock/tcrdist/convert_svg_to_png.py",967   "sha256": "c0fa09a19d91a57e651d7c2ca1418b6ad44bdd6935a53fe035db1a447e86c46c",968   "language": "Python",969   "lines": 153,970   "truncated": false,971   "block": 19,972   "row": 11518973  },974  {975   "path": "tcrdock/tcrdist/genetic_code.py",976   "sha256": "c27cdb1f678f5cec881dd45dd6bc0dcec350b2bd70d512d67d47f8467cabbb56",977   "language": "Python",978   "lines": 132,979   "truncated": false,980   "block": 19,981   "row": 11115982  },983  {984   "path": "tcrdock/tcrdist/html_colors.py",985   "sha256": "a867ba4bae183e2aeb17d3e1859dca7900b6c325900d80b5a7eda66914300d42",986   "language": "Python",987   "lines": 247,988   "truncated": false,989   "block": 19,990   "row": 12626991  },992  {993   "path": "tcrdock/tcrdist/infer_cdr3_nucleotides.py",994   "sha256": "b1e9fc21c7c61da8b374031735a42ffe71c1320697462fb314b020e5c075f90f",995   "language": "Python",996   "lines": 172,997   "truncated": false,998   "block": 19,999   "row": 122251000  },1001  {1002   "path": "tcrdock/tcrdist/logo_tools.py",1003   "sha256": "c00c196600d8df307e41d44339487b5de0d593af80c652832248fc7ee8a23b82",1004   "language": "Python",1005   "lines": 122,1006   "truncated": false,1007   "block": 19,1008   "row": 109881009  },1010  {1011   "path": "tcrdock/tcrdist/make_10x_clones_file.py",1012   "sha256": "b06c2643f60ab5e130396577b349e29e004f7634ceabfba9ba8b18a10959a5fd",1013   "language": "Python",1014   "lines": 705,1015   "truncated": false,1016   "block": 19,1017   "row": 143641018  },1019  {1020   "path": "tcrdock/tcrdist/make_really_tall_trees.py",1021   "sha256": "1fcd30ab5df12468e9349389aa0f3e27940939576429e92f11509c2efc9bf1f5",1022   "language": "Python",1023   "lines": 444,1024   "truncated": false,1025   "block": 19,1026   "row": 138101027  },1028  {1029   "path": "tcrdock/tcrdist/make_tcr_logo.py",1030   "sha256": "cd68c3a9785f5961545dc58dfedc212a4e2852f9eb14f639983617c76d1274a3",1031   "language": "Python",1032   "lines": 580,1033   "truncated": false,1034   "block": 19,1035   "row": 141671036  },1037  {1038   "path": "tcrdock/tcrdist/make_tcr_trees.py",1039   "sha256": "c00970a71128e38919bd85c70f30b5a191507aeac00261c00c47498069f60356",1040   "language": "Python",1041   "lines": 379,1042   "truncated": false,1043   "block": 19,1044   "row": 137821045  },1046  {1047   "path": "tcrdock/tcrdist/parsing.py",1048   "sha256": "cf9043e86e7c8526861a10a7c2e943c76ddf93d8d2a38569d9edb81760f401cb",1049   "language": "Python",1050   "lines": 262,1051   "truncated": false,1052   "block": 19,1053   "row": 130111054  },1055  {1056   "path": "tcrdock/tcrdist/score_trees_devel.py",1057   "sha256": "058b99c8e6d69643ff25e12c4e6a0036dc7b741880e7af3c8c92878b3525b58f",1058   "language": "Python",1059   "lines": 507,1060   "truncated": false,1061   "block": 19,1062   "row": 138641063  },1064  {1065   "path": "tcrdock/tcrdist/tcr_distances.py",1066   "sha256": "c8de606d20349fbade2b4ba1e5e373fc7b21ac12eba65aa5b9bea0b022a0db78",1067   "language": "Python",1068   "lines": 256,1069   "truncated": false,1070   "block": 19,1071   "row": 130131072  },1073  {1074   "path": "tcrdock/tcrdist/tcr_distances_blosum.py",1075   "sha256": "1dd013430353741ea7a78840783c66bb4e6c6d980f3d9e603c4e24b38ec2edb9",1076   "language": "Python",1077   "lines": 44,1078   "truncated": false,1079   "block": 19,1080   "row": 127511081  },1082  {1083   "path": "tcrdock/tcrdist/tcr_sampler.py",1084   "sha256": "5d1c451cc6f69383555a4638cd995434bd870cecc04b1e882594ed1be1e3d68c",1085   "language": "Python",1086   "lines": 666,1087   "truncated": false,1088   "block": 19,1089   "row": 143511090  },1091  {1092   "path": "tcrdock/tcrdist/tcrdist_svg_basic.py",1093   "sha256": "5ed89cf6e6f7bbb1eacc6f99128f1fb82d0ba776db25a14b3f67b5b0121ce0c1",1094   "language": "Python",1095   "lines": 500,1096   "truncated": false,1097   "block": 19,1098   "row": 140261099  },1100  {1101   "path": "tcrdock/tcrdist/translation.py",1102   "sha256": "7c283a3c47c842fa6898096b4d4a3bcdf2a96d8a4a9995991ecc203342989875",1103   "language": "Python",1104   "lines": 59,1105   "truncated": false,1106   "block": 19,1107   "row": 97281108  },1109  {1110   "path": "tcrdock/tcrdist/util.py",1111   "sha256": "1349591d846dedb43192a19e24ca804d24d873c70f163b524d207fba154101d8",1112   "language": "Python",1113   "lines": 242,1114   "truncated": false,1115   "block": 19,1116   "row": 130821117  },1118  {1119   "path": "tcrdock/tcrdock_info.py",1120   "sha256": "38c75f72ab72d53c2c60286e31c716b02e1a985866269912f604abd886070245",1121   "language": "Python",1122   "lines": 178,1123   "truncated": false,1124   "block": 19,1125   "row": 122271126  },1127  {1128   "path": "tcrdock/util.py",1129   "sha256": "d2301d006b68f441f9d255cb4b43343e12f17806a6156f77a23b1f846d711396",1130   "language": "Python",1131   "lines": 89,1132   "truncated": false,1133   "block": 19,1134   "row": 103241135  },1136  {1137   "path": "tcrdock_colab_pipeline_v1.ipynb",1138   "sha256": "ddb58857d8cd6fcb2125bd3beacb8e2726538fd3b9e45cc8870902e666a23dbf",1139   "language": "Jupyter",1140   "lines": 286,1141   "truncated": false,1142   "block": 19,1143   "row": 39721144  }1145 ]1146}