OpenScientificCodeRegistry/Database
Open Scientific Code Registry (OSCR): the authors' scripts The code published by the authors of open-access neuroscience papers, as found and verified by Open Scientific Code Registry (OSCR). Each file is here exactly as it is at the source, at the verified commit, under the license of its repository. 421,275 unique files (3,782 MB of text) from 8,849 repositories, in 24 Parquet block(s). Only files whose repository's license allows redistribution, confirmed by the repository's… See the full description on the dataset page: https://huggingface.co/datasets/OpenScientificCodeRegistry/Database.
05.6k
1{2 "format": "oscr-script-manifest/1",3 "repository": "github.com/medema-group/big-scape",4 "url": "https://github.com/medema-group/BiG-SCAPE",5 "host": "github.com",6 "commit": "6bf7ca79418a34f412822113a1ee99f591e28e9f",7 "license": "AGPL-3.0",8 "license_confirmed_by": "license file LICENSE",9 "redistribution": "yes",10 "files": [11 {12 "path": "LICENSE",13 "sha256": "b15ffe346dbc40a7c847f69071c43b686b81712f58b2ebe1036e61a49e18fcbc",14 "language": "License",15 "lines": 661,16 "truncated": false,17 "block": 10,18 "row": 618019 },20 {21 "path": "README.md",22 "sha256": "23b0d4a0eff4ec1c1c77f6a3bd1b00b665a6102a378dfb4e5e6e41b552ae6b4e",23 "language": "Text",24 "lines": 29,25 "truncated": false,26 "block": 10,27 "row": 1982428 },29 {30 "path": "big_scape/__init__.py",31 "sha256": "41355c904139f808de795d27e89964ba9e322119b2c83215fc8348f8b245d089",32 "language": "Python",33 "lines": 1,34 "truncated": false,35 "block": 10,36 "row": 958937 },38 {39 "path": "big_scape/__main__.py",40 "sha256": "4149e2bba52ac01bbe4cb174c4eed8bda21f2a4cb4140ed68396d80078f27b6f",41 "language": "Python",42 "lines": 57,43 "truncated": false,44 "block": 10,45 "row": 1133846 },47 {48 "path": "big_scape/benchmarking/__init__.py",49 "sha256": "e2ab739cea0c99fecde2dfc527800d5fb2b0b539bf9f927cf188d4ec5c0d9843",50 "language": "Python",51 "lines": 7,52 "truncated": false,53 "block": 10,54 "row": 993455 },56 {57 "path": "big_scape/benchmarking/benchmark.py",58 "sha256": "d693b16239c451fc39cc0fdd30041fc449108b69c19000c1288682464063cbba",59 "language": "Python",60 "lines": 41,61 "truncated": false,62 "block": 10,63 "row": 1150964 },65 {66 "path": "big_scape/benchmarking/benchmark_data_loader.py",67 "sha256": "83add3de2706698741245505c67b8aaa9aac2e77357589ca30adc9339b587d5f",68 "language": "Python",69 "lines": 245,70 "truncated": false,71 "block": 10,72 "row": 1529773 },74 {75 "path": "big_scape/benchmarking/benchmark_metrics.py",76 "sha256": "0446be6f3bb11cc41c542115f0c71aef62b21ad305535254539bedabcd43fbcb",77 "language": "Python",78 "lines": 229,79 "truncated": false,80 "block": 10,81 "row": 1519482 },83 {84 "path": "big_scape/benchmarking/benchmark_output.py",85 "sha256": "03049d6a5627dead2cd6fcc0400f0a26ee76e6a081c4cd76d1cce44231ecd587",86 "language": "Python",87 "lines": 285,88 "truncated": false,89 "block": 10,90 "row": 1564691 },92 {93 "path": "big_scape/cli/__init__.py",94 "sha256": "9ebb6424c1fc528438d23973d0230c9df58a2e4d79b70f20cdb3c35d9b27e8e5",95 "language": "Python",96 "lines": 37,97 "truncated": false,98 "block": 10,99 "row": 10825100 },101 {102 "path": "big_scape/cli/benchmark_cli.py",103 "sha256": "b7cdf62a1531a58b4e7ee49aac61a3583586654430e746f7d534b72db8ceacbe",104 "language": "Python",105 "lines": 67,106 "truncated": false,107 "block": 10,108 "row": 11619109 },110 {111 "path": "big_scape/cli/cli_common_options.py",112 "sha256": "a89f1eccdd16e26e710a3558aaee77976156d779de5cec74cf2331bfce409be2",113 "language": "Python",114 "lines": 416,115 "truncated": false,116 "block": 10,117 "row": 16441118 },119 {120 "path": "big_scape/cli/cli_config.py",121 "sha256": "4f8582b9e672f5649053111585b46c74a5de23c57987a8f0e42c9570853c7eca",122 "language": "Python",123 "lines": 18,124 "truncated": false,125 "block": 10,126 "row": 10150127 },128 {129 "path": "big_scape/cli/cli_validations.py",130 "sha256": "1a33f09d2013f71f561dbd8b08ebd82c3518af677bcd69a832d048b372eff654",131 "language": "Python",132 "lines": 445,133 "truncated": false,134 "block": 10,135 "row": 16177136 },137 {138 "path": "big_scape/cli/cluster_cli.py",139 "sha256": "1311bfb357db60e90d3d571a9b1bf483d4c35e2da11bfdcb6280d71c7d7ea95d",140 "language": "Python",141 "lines": 172,142 "truncated": false,143 "block": 10,144 "row": 14321145 },146 {147 "path": "big_scape/cli/config.py",148 "sha256": "f3bcec0d864b9d539a207b5e7001cf4d89652ea81c31e96a0e812df54ef44dfd",149 "language": "Python",150 "lines": 290,151 "truncated": false,152 "block": 10,153 "row": 15315154 },155 {156 "path": "big_scape/cli/dereplicate_cli.py",157 "sha256": "c86c6c9199cfbdc1bf7b8acfe3148453aaea11f0f32f0d4734efdef24a79f682",158 "language": "Python",159 "lines": 65,160 "truncated": false,161 "block": 10,162 "row": 11665163 },164 {165 "path": "big_scape/cli/query_cli.py",166 "sha256": "6a6c7cba646b225bb64612e4828dc62de0c202d236885f71c3e586dec2e38bdc",167 "language": "Python",168 "lines": 128,169 "truncated": false,170 "block": 10,171 "row": 13402172 },173 {174 "path": "big_scape/comparison/__init__.py",175 "sha256": "e85f15757cab455e6368c6937aeaf17b06973885fd90ac6da8d3dd2ef478126d",176 "language": "Python",177 "lines": 51,178 "truncated": false,179 "block": 10,180 "row": 11091181 },182 {183 "path": "big_scape/comparison/binning.py",184 "sha256": "06b1d3e2b6b1785c8afc143f83899ae55faac6366e480db1bbaa2c88b3c2cc91",185 "language": "Python",186 "lines": 1033,187 "truncated": false,188 "block": 10,189 "row": 17354190 },191 {192 "path": "big_scape/comparison/comparable_region.py",193 "sha256": "57490a9774e4ad0d2e09dc70a9c4cf2515b2386922233fee76439dd7c9f8c074",194 "language": "Python",195 "lines": 258,196 "truncated": false,197 "block": 10,198 "row": 15121199 },200 {201 "path": "big_scape/comparison/extend.py",202 "sha256": "fce17fa077218422777f5aadf9670d6e82e5890272ec613b9730f58ecc2a8579",203 "language": "Python",204 "lines": 711,205 "truncated": false,206 "block": 10,207 "row": 16948208 },209 {210 "path": "big_scape/comparison/lcs.py",211 "sha256": "1b238d6bbb1b3e667f03e5b17e7c3c3ce37ffa4300d07ffd642b6daa8dec9232",212 "language": "Python",213 "lines": 615,214 "truncated": false,215 "block": 10,216 "row": 16865217 },218 {219 "path": "big_scape/comparison/record_pair.py",220 "sha256": "082a22bb7cbad806b0f97fdb7d92a006ea7a207c796d3016aa109b27da81f042",221 "language": "Python",222 "lines": 253,223 "truncated": false,224 "block": 10,225 "row": 15182226 },227 {228 "path": "big_scape/comparison/utility.py",229 "sha256": "7b84cbb5a5a44288cfa409234640c8aaa722aabf30feb02c21733422b2730406",230 "language": "Python",231 "lines": 305,232 "truncated": false,233 "block": 10,234 "row": 15286235 },236 {237 "path": "big_scape/comparison/workflow.py",238 "sha256": "7bee61997cad6a45066fe8fc94067568852c7c9ff30477bb83a943538ca45fca",239 "language": "Python",240 "lines": 666,241 "truncated": false,242 "block": 10,243 "row": 16846244 },245 {246 "path": "big_scape/data/__init__.py",247 "sha256": "e51c88c37d6291146aa4a9846c6d55e7b96e3246f6ba0dc225862e589c6cf52e",248 "language": "Python",249 "lines": 22,250 "truncated": false,251 "block": 10,252 "row": 10126253 },254 {255 "path": "big_scape/data/partial_task.py",256 "sha256": "01e3e871c4d5ba64143bb26efe8197096eb2fd01cb1174fd5f5345f38007791f",257 "language": "Python",258 "lines": 206,259 "truncated": false,260 "block": 10,261 "row": 14202262 },263 {264 "path": "big_scape/data/sqlite.py",265 "sha256": "8de5566a78eca65ef7c31fb7ada955a249cd44e6753c06ae4426d80a498b9ba7",266 "language": "Python",267 "lines": 517,268 "truncated": false,269 "block": 10,270 "row": 16359271 },272 {273 "path": "big_scape/dereplicating/__init__.py",274 "sha256": "a28badd0599da1d67a8499329b16307798c3ec9d0f7a255462415d75cf89a3e1",275 "language": "Python",276 "lines": 26,277 "truncated": false,278 "block": 10,279 "row": 10472280 },281 {282 "path": "big_scape/dereplicating/dereplicate.py",283 "sha256": "19bf1e9b0fb9d1aae7d08faf6f2cb15bc09990ebf88fb06d5d58062fd2cdf717",284 "language": "Python",285 "lines": 56,286 "truncated": false,287 "block": 10,288 "row": 11756289 },290 {291 "path": "big_scape/dereplicating/gbk_component_parsing.py",292 "sha256": "945cb241498651467eca7c5367e61b483d8da90e359557318ba4c5bc01130e5a",293 "language": "Python",294 "lines": 59,295 "truncated": false,296 "block": 10,297 "row": 11241298 },299 {300 "path": "big_scape/dereplicating/gbk_components/__init__.py",301 "sha256": "f8b8906baf881369019be6922f172fb94876473abb350e1e6cc2d282f2ecec9f",302 "language": "Python",303 "lines": 6,304 "truncated": false,305 "block": 10,306 "row": 9774307 },308 {309 "path": "big_scape/dereplicating/gbk_components/cds.py",310 "sha256": "06880bb787031ca9b1e488ab37073540ad48d3865a38793ae957a10b2a400ae7",311 "language": "Python",312 "lines": 288,313 "truncated": false,314 "block": 10,315 "row": 15328316 },317 {318 "path": "big_scape/dereplicating/gbk_components/gbk.py",319 "sha256": "9ad7e7ead46851fa3898a761d09d73287031c9adb601ff66a6a7671c62973bca",320 "language": "Python",321 "lines": 88,322 "truncated": false,323 "block": 10,324 "row": 12227325 },326 {327 "path": "big_scape/dereplicating/input_data_loading.py",328 "sha256": "0cbc001a81413cf98188b7c48039bcf59f1f755b647cb42d1ef37c2f97ae2af4",329 "language": "Python",330 "lines": 304,331 "truncated": false,332 "block": 10,333 "row": 15173334 },335 {336 "path": "big_scape/dereplicating/networking.py",337 "sha256": "f2d492ce81f9df879e6f6b98c5d6eee26758c5b858012fc9256677409da0af6d",338 "language": "Python",339 "lines": 266,340 "truncated": false,341 "block": 10,342 "row": 15434343 },344 {345 "path": "big_scape/dereplicating/output_generation.py",346 "sha256": "f162c5537afdfc0aa988274514ac74e69eb44047b52c87dd1ac8275ad47f150e",347 "language": "Python",348 "lines": 84,349 "truncated": false,350 "block": 10,351 "row": 12611352 },353 {354 "path": "big_scape/dereplicating/sourmash_utilities.py",355 "sha256": "9eddb9fc91046c469edf7b290fbbbfd944b4b02da8800e552ac0a564abfe08f4",356 "language": "Python",357 "lines": 353,358 "truncated": false,359 "block": 10,360 "row": 15656361 },362 {363 "path": "big_scape/diagnostics/__init__.py",364 "sha256": "b7d77b3d66d011c8ef6fc52d6295e3b90a0dc5add4a91113e0da06b1d5b8afbf",365 "language": "Python",366 "lines": 12,367 "truncated": false,368 "block": 10,369 "row": 9958370 },371 {372 "path": "big_scape/diagnostics/logger.py",373 "sha256": "9a368102714ac2b23a0110103f40c4d0a493793356f67ac2d698ff54d569ebfe",374 "language": "Python",375 "lines": 51,376 "truncated": false,377 "block": 10,378 "row": 11400379 },380 {381 "path": "big_scape/diagnostics/profiler.py",382 "sha256": "f5a17afb9e7a9a7a7f0aa933d08089ea961e846d37f350aca6b1f9bb0d3d3efe",383 "language": "Python",384 "lines": 280,385 "truncated": false,386 "block": 10,387 "row": 15226388 },389 {390 "path": "big_scape/distances/__init__.py",391 "sha256": "124c09b3c4b827703a3f18d9dc8706ed7e0f6ee8b840d2a9ef063fb424a65646",392 "language": "Python",393 "lines": 11,394 "truncated": false,395 "block": 10,396 "row": 9952397 },398 {399 "path": "big_scape/distances/adjacency.py",400 "sha256": "91f95c7f9d6ac51b592203af7c5d632acb1b942ba6b482fd6fa18c279f0b9c6f",401 "language": "Python",402 "lines": 92,403 "truncated": false,404 "block": 10,405 "row": 12210406 },407 {408 "path": "big_scape/distances/classify.py",409 "sha256": "34a1f1a37bddd79b5ea3c9214c303aed66834beeef5a1894e6fd7c6a64cb88b6",410 "language": "Python",411 "lines": 75,412 "truncated": false,413 "block": 10,414 "row": 12131415 },416 {417 "path": "big_scape/distances/dss.py",418 "sha256": "67fa80ada27bd0c66f1592b218f014e24b7eb69077c9e7cd61e7e2f6336901d0",419 "language": "Python",420 "lines": 250,421 "truncated": false,422 "block": 10,423 "row": 15105424 },425 {426 "path": "big_scape/distances/jaccard.py",427 "sha256": "dec67055ad06b51972404ccccbf96afa7772bab27285e1234fb0a2dfcd99586e",428 "language": "Python",429 "lines": 36,430 "truncated": false,431 "block": 10,432 "row": 10742433 },434 {435 "path": "big_scape/distances/legacy_classify.py",436 "sha256": "30a44b145ce04da6ac0eec5e4ae94616c169205ee980eaf9dc6368b850e374c5",437 "language": "Python",438 "lines": 74,439 "truncated": false,440 "block": 10,441 "row": 12082442 },443 {444 "path": "big_scape/distances/mix.py",445 "sha256": "2c2ce445441bdf6fa81a8cec6c0046e027032b3a4140338b7c66c0435ce2a871",446 "language": "Python",447 "lines": 69,448 "truncated": false,449 "block": 10,450 "row": 11870451 },452 {453 "path": "big_scape/distances/query.py",454 "sha256": "94728bb9cd11267f58c97cbce9995c059616bc57bc05ed6bee3d041d79a22277",455 "language": "Python",456 "lines": 221,457 "truncated": false,458 "block": 10,459 "row": 14818460 },461 {462 "path": "big_scape/enums/__init__.py",463 "sha256": "4c9791e9e4328d928f06beb269098b650e42a6d8cc145bf6a5fbd14eb86decec",464 "language": "Python",465 "lines": 32,466 "truncated": false,467 "block": 10,468 "row": 10462469 },470 {471 "path": "big_scape/enums/comparison.py",472 "sha256": "fb2cd0fdef8cdedfcdbe2631ec8462b2f85a0a0f945018bcf1b4d63440631e40",473 "language": "Python",474 "lines": 34,475 "truncated": false,476 "block": 10,477 "row": 10281478 },479 {480 "path": "big_scape/enums/components.py",481 "sha256": "6f6f3b471baf205f9ff5506fd2969fa1517cf5d781991b50c0da726c378ac7fd",482 "language": "Python",483 "lines": 14,484 "truncated": false,485 "block": 10,486 "row": 9983487 },488 {489 "path": "big_scape/enums/genbank.py",490 "sha256": "545398d6f97507e72217b381fd460837de7a044376de75e9b700a95fdb86acec",491 "language": "Python",492 "lines": 19,493 "truncated": false,494 "block": 10,495 "row": 10119496 },497 {498 "path": "big_scape/enums/input_parameters.py",499 "sha256": "eca13d98b25ff53c7dd0631d2a3c47bb23abc5d672bd040a949876ff414bd7f5",500 "language": "Python",501 "lines": 16,502 "truncated": false,503 "block": 10,504 "row": 9963505 },506 {507 "path": "big_scape/enums/partial_task.py",508 "sha256": "fe1131a738ed1f3daf2f31df5a5f00c5f5a1c29a3da661e32bf67f13c9f6c280",509 "language": "Python",510 "lines": 25,511 "truncated": false,512 "block": 10,513 "row": 10428514 },515 {516 "path": "big_scape/enums/source_type.py",517 "sha256": "09c4488fc75c2cb3eb7dfb1b9dd0e974f8569fecea7a2866fd381e4cf9e16ce6",518 "language": "Python",519 "lines": 8,520 "truncated": false,521 "block": 10,522 "row": 9784523 },524 {525 "path": "big_scape/errors/__init__.py",526 "sha256": "a5ace073960c5cf04069f14e84bddac9045bdf9ba7a9e9f0ec81dde475f22bb4",527 "language": "Python",528 "lines": 14,529 "truncated": false,530 "block": 10,531 "row": 10156532 },533 {534 "path": "big_scape/errors/data.py",535 "sha256": "c0a88fcea547605d5fcf0e144eeabf1eda60685043665ac21194bc577e5f8a44",536 "language": "Python",537 "lines": 29,538 "truncated": false,539 "block": 10,540 "row": 10741541 },542 {543 "path": "big_scape/errors/genbank.py",544 "sha256": "30c2679d03b2e1676900b14dce5c5e579d9d7f55a425f0fefeed23ec73ccdada",545 "language": "Python",546 "lines": 19,547 "truncated": false,548 "block": 10,549 "row": 10298550 },551 {552 "path": "big_scape/errors/input_args.py",553 "sha256": "70b390a11183042dea9da49490c71bf32764ffb0b3a897b11bede9b699b2fb95",554 "language": "Python",555 "lines": 32,556 "truncated": false,557 "block": 10,558 "row": 10808559 },560 {561 "path": "big_scape/file_input/__init__.py",562 "sha256": "2f35f8ecc004788fefb77e1464783fa00726fb4602d3aaf660995da3f3409069",563 "language": "Python",564 "lines": 16,565 "truncated": false,566 "block": 10,567 "row": 10023568 },569 {570 "path": "big_scape/file_input/load_files.py",571 "sha256": "1d77c2ad3b5d84cfda5ed499f0b18bbe1d12e7985e777b02fc26f7de1537833f",572 "language": "Python",573 "lines": 511,574 "truncated": false,575 "block": 10,576 "row": 16379577 },578 {579 "path": "big_scape/genbank/__init__.py",580 "sha256": "85d13958177a4b2f869e7223ec08a96f4b4b91ebfeaabbfafd0e29aa8290750a",581 "language": "Python",582 "lines": 30,583 "truncated": false,584 "block": 10,585 "row": 10440586 },587 {588 "path": "big_scape/genbank/bgc_record.py",589 "sha256": "87353a120d682aa85854c4a33148beaedde51921ec0fbcfdb699fc6199dd53a5",590 "language": "Python",591 "lines": 526,592 "truncated": false,593 "block": 10,594 "row": 16416595 },596 {597 "path": "big_scape/genbank/candidate_cluster.py",598 "sha256": "9399e90fc4f3003e6ebfa2682c4fe96b5e4e63a18898cce694b32ecb576dff7d",599 "language": "Python",600 "lines": 258,601 "truncated": false,602 "block": 10,603 "row": 15054604 },605 {606 "path": "big_scape/genbank/cds.py",607 "sha256": "857b47402b65b15bc6eed107ce90b78b48d77c0c1816342fb44b852023202279",608 "language": "Python",609 "lines": 531,610 "truncated": false,611 "block": 10,612 "row": 16393613 },614 {615 "path": "big_scape/genbank/gbk.py",616 "sha256": "74f35728907a94fbaee3638c3923ca970dd31ccfae3bd868c4e783a2e571cddf",617 "language": "Python",618 "lines": 856,619 "truncated": false,620 "block": 10,621 "row": 17160622 },623 {624 "path": "big_scape/genbank/proto_cluster.py",625 "sha256": "78ac1d8d363043b340a57842837df30de90680777b0760cf6c66f013ddbc7278",626 "language": "Python",627 "lines": 394,628 "truncated": false,629 "block": 10,630 "row": 15825631 },632 {633 "path": "big_scape/genbank/proto_core.py",634 "sha256": "e986c2e6f31108cf9f536f9d1e6a2b4b7f9879c8da331808a1ad468ba6a2cc65",635 "language": "Python",636 "lines": 284,637 "truncated": false,638 "block": 10,639 "row": 15088640 },641 {642 "path": "big_scape/genbank/region.py",643 "sha256": "5abea260bf09a4332af6c495f8a56e91a02b8958ef0fcfd8a7226259f73bb80a",644 "language": "Python",645 "lines": 359,646 "truncated": false,647 "block": 10,648 "row": 15699649 },650 {651 "path": "big_scape/hmm/__init__.py",652 "sha256": "b960e8bb20337da1767d208d9dcd07c25ae1a57f9f8188d30c36705f6fc88906",653 "language": "Python",654 "lines": 18,655 "truncated": false,656 "block": 10,657 "row": 10207658 },659 {660 "path": "big_scape/hmm/hmmalign.py",661 "sha256": "9a4f9f71f8659d41ed784cd2e27546bf6f5c603bbb28d66f29e63229fe3407c1",662 "language": "Python",663 "lines": 52,664 "truncated": false,665 "block": 10,666 "row": 11225667 },668 {669 "path": "big_scape/hmm/hmmer.py",670 "sha256": "9eab1c4c2d02f8942001d0e8e2cd599ebd6f9d255f34bf1783e5f1a09082ec09",671 "language": "Python",672 "lines": 660,673 "truncated": false,674 "block": 10,675 "row": 16980676 },677 {678 "path": "big_scape/hmm/hmmsearch.py",679 "sha256": "b6479c2185b1c0df57c6c34ef9cf1a1185af12a4ddbd1effd8ef1d9a4dde6a53",680 "language": "Python",681 "lines": 100,682 "truncated": false,683 "block": 10,684 "row": 12828685 },686 {687 "path": "big_scape/hmm/hsp.py",688 "sha256": "75cf90494b53d7bb603d05f4510311a9691d6e3cb99ef15229a1c547f91f6d84",689 "language": "Python",690 "lines": 313,691 "truncated": false,692 "block": 10,693 "row": 15298694 },695 {696 "path": "big_scape/hmm/legacy_filter.py",697 "sha256": "978bdbc8b3b79d0e5d9d1ceb62bc9984359fb1a8177fe013d33c74b92f3bb1e4",698 "language": "Python",699 "lines": 96,700 "truncated": false,701 "block": 10,702 "row": 12655703 },704 {705 "path": "big_scape/network/DBAdjList.py",706 "sha256": "85f2856b95128a3855c3e207f21cdadb42bff99c14a5408b733543223b2b2172",707 "language": "Python",708 "lines": 89,709 "truncated": false,710 "block": 10,711 "row": 12624712 },713 {714 "path": "big_scape/network/__init__.py",715 "sha256": "6354f420372a5ad257e0b90997917ccdc5f557ada48eb48ce5a9d4c16378ab51",716 "language": "Python",717 "lines": 3,718 "truncated": false,719 "block": 10,720 "row": 9834721 },722 {723 "path": "big_scape/network/families.py",724 "sha256": "cf0b0293daca656b86caa15e1d31c35cee0efc985a477e12b64fed6b8172f8e9",725 "language": "Python",726 "lines": 401,727 "truncated": false,728 "block": 10,729 "row": 16002730 },731 {732 "path": "big_scape/network/network.py",733 "sha256": "89b47da25c1760c239070db549211bcc1fa037f6348555e9301ccbbefea70287",734 "language": "Python",735 "lines": 613,736 "truncated": false,737 "block": 10,738 "row": 16563739 },740 {741 "path": "big_scape/network/utility.py",742 "sha256": "b22ceafb6a0d5e71252ce7f21bc5b3f579b5a7fcfa2597fe2590762f87e898e6",743 "language": "Python",744 "lines": 48,745 "truncated": false,746 "block": 10,747 "row": 11382748 },749 {750 "path": "big_scape/output/__init__.py",751 "sha256": "021d6e262ad25aa6cd772c947d29c13ba6c1c71deef1aff701c2a4e207ab8951",752 "language": "Python",753 "lines": 21,754 "truncated": false,755 "block": 10,756 "row": 10282757 },758 {759 "path": "big_scape/output/html_template/output/html_content/js/arrower.js",760 "sha256": "80ecc5ffd883d7c5ca86a552f04571daf97d1bdea2bb2095e8b78aa2c4eb9633",761 "language": "JavaScript",762 "lines": 323,763 "truncated": false,764 "block": 10,765 "row": 4676766 },767 {768 "path": "big_scape/output/html_template/output/html_content/js/bigscape.js",769 "sha256": "70ab9ad0cf803b48d2c37473fba3cf5ac8bfc860789f0525779f63cee0571512",770 "language": "JavaScript",771 "lines": 1525,772 "truncated": false,773 "block": 10,774 "row": 4766775 },776 {777 "path": "big_scape/output/html_template/output/html_content/js/biojs-io-newick.min.js",778 "sha256": "d3a96b76e02a21c8a4317c55e89e577164042090c38b5c2f3559c0eff7943f25",779 "language": "JavaScript",780 "lines": 262,781 "truncated": false,782 "block": 10,783 "row": 4651784 },785 {786 "path": "big_scape/output/html_template/output/html_content/js/chart-4.4.1.umd.js",787 "sha256": "1c14097e81f91c7d79580cf89b957a9457b8203cf0393d1f299dc17757a6191f",788 "language": "JavaScript",789 "lines": 13,790 "truncated": true,791 "block": 10,792 "row": 4796793 },794 {795 "path": "big_scape/output/html_template/output/html_content/js/clusterfck-0.1-satria.js",796 "sha256": "302344a1a48c38c5f6b91bdb87c36447fc3f7125ea6f64733eca10bab696e040",797 "language": "JavaScript",798 "lines": 183,799 "truncated": false,800 "block": 10,801 "row": 4617802 },803 {804 "path": "big_scape/output/html_template/output/html_content/js/fuse.min.js",805 "sha256": "77a353c112eabf88bcecafc570a0a82889a6055cdcd3d7bae126c71712c3ce70",806 "language": "JavaScript",807 "lines": 9,808 "truncated": false,809 "block": 10,810 "row": 4745811 },812 {813 "path": "big_scape/output/html_template/output/html_content/js/inchlib-1.2.0.1-satria.js",814 "sha256": "9cf11a8b0b63d1803026efe4154c2881f9fb9f2f34555ba1a19ff97b460f5800",815 "language": "JavaScript",816 "lines": 3740,817 "truncated": false,818 "block": 10,819 "row": 4787820 },821 {822 "path": "big_scape/output/html_template/output/html_content/js/jquery-3.2.1.min.js",823 "sha256": "87083882cc6015984eb0411a99d3981817f5dc5c90ba24f0940420c5548d82de",824 "language": "JavaScript",825 "lines": 4,826 "truncated": false,827 "block": 3,828 "row": 6964829 },830 {831 "path": "big_scape/output/html_template/output/html_content/js/kinetic-v5.1.0.min.js",832 "sha256": "53e835089c4ed29b5395787f94067c1fea7b75fd674b3bfdba0829ef72b8a732",833 "language": "JavaScript",834 "lines": 5,835 "truncated": false,836 "block": 10,837 "row": 4783838 },839 {840 "path": "big_scape/output/html_template/output/html_content/js/pfams.js",841 "sha256": "9a99f811996f790a0f1983319ed13a334421000ffc24e920eaef7692794aea2f",842 "language": "JavaScript",843 "lines": 8174,844 "truncated": true,845 "block": 10,846 "row": 4800847 },848 {849 "path": "big_scape/output/html_template/output/html_content/js/sql-asm.js",850 "sha256": "ff4f9e85d9088a557bd65920e3722cd9349bde89843ec240b800fb110831ce46",851 "language": "JavaScript",852 "lines": 101,853 "truncated": true,854 "block": 10,855 "row": 4804856 },857 {858 "path": "big_scape/output/html_template/output/html_content/js/svg.js",859 "sha256": "1332832442c7016bb0265eacee7e43d382d10747499f0c40bf6ebf53ead407a2",860 "language": "JavaScript",861 "lines": 5541,862 "truncated": false,863 "block": 10,864 "row": 4786865 },866 {867 "path": "big_scape/output/html_template/output/html_content/js/treelib.js",868 "sha256": "2c50c5daf9b767902842303b50772eb93403a038547000ede3ee5cd26d3dc925",869 "language": "JavaScript",870 "lines": 1877,871 "truncated": false,872 "block": 10,873 "row": 4756874 },875 {876 "path": "big_scape/output/html_template/output/html_content/js/vivagraph.js",877 "sha256": "560d59534b9e683e9ff5b66682b2088a3cf37f9f06242c23c05bd2737d592aec",878 "language": "JavaScript",879 "lines": 6847,880 "truncated": false,881 "block": 10,882 "row": 4794883 },884 {885 "path": "big_scape/output/legacy_output.py",886 "sha256": "7d9a3f1ca68917f8a1b86cd5e95c26040844a4883f6962d3c232666a021a77bc",887 "language": "Python",888 "lines": 796,889 "truncated": false,890 "block": 10,891 "row": 17034892 },893 {894 "path": "big_scape/paths.py",895 "sha256": "9c80557ca4ea29e59d9fa3a0b4d34bdc85144d096fd0a2b9ae098f8d94eaaf0f",896 "language": "Python",897 "lines": 9,898 "truncated": false,899 "block": 10,900 "row": 10116901 },902 {903 "path": "big_scape/run_bigscape.py",904 "sha256": "f92a085e4f0ec7472ca83db7a76cfb148ffb804cd194f448b8ae7bbb151902e4",905 "language": "Python",906 "lines": 374,907 "truncated": false,908 "block": 10,909 "row": 15806910 },911 {912 "path": "big_scape/trees/__init__.py",913 "sha256": "662841fdea813fd5e0cb07b01a5741c82541b81aff77b6709f67b9955e7edf56",914 "language": "Python",915 "lines": 5,916 "truncated": false,917 "block": 10,918 "row": 9831919 },920 {921 "path": "big_scape/trees/newick_tree.py",922 "sha256": "9933e1fa608c175f8fee340a66b52114e228e46e36a36e446d8c81348d5ea3c7",923 "language": "Python",924 "lines": 299,925 "truncated": false,926 "block": 10,927 "row": 15585928 },929 {930 "path": "big_scape/utility/__init__.py",931 "sha256": "93df198b488874a9055a5a416107a69e477613d3154c17f960fbe0f6b7451c64",932 "language": "Python",933 "lines": 12,934 "truncated": false,935 "block": 10,936 "row": 10030937 },938 {939 "path": "big_scape/utility/filters.py",940 "sha256": "69fc16da65e792fc3bbb8aea72f28d6e7fdeb9e4a2bc964aff26c867d54159a7",941 "language": "Python",942 "lines": 147,943 "truncated": false,944 "block": 10,945 "row": 13565946 },947 {948 "path": "big_scape/utility/multiprocess.py",949 "sha256": "dad30b27a43ff7500e528ff3814ab6ea42e00503e7301dfbfa8ab8ea6525e765",950 "language": "Python",951 "lines": 98,952 "truncated": false,953 "block": 10,954 "row": 12784955 },956 {957 "path": "big_scape/utility/version.py",958 "sha256": "fc83f73c27bfbfe0345177b1c944d83c0a15a30bb76c0ac15b3fc44f68877f00",959 "language": "Python",960 "lines": 29,961 "truncated": false,962 "block": 10,963 "row": 10939964 },965 {966 "path": "bigscape.py",967 "sha256": "8362fd715b3a34ae341b5ea43382ccc986643a29d3a715c5f6d2dfd058c32fab",968 "language": "Python",969 "lines": 37,970 "truncated": false,971 "block": 10,972 "row": 10764973 },974 {975 "path": "test/benchmark/__init__.py",976 "sha256": "d978a5d5ab7b9740703ab1dce65f025a23f5774673de826f6d7fdbadd43f383f",977 "language": "Python",978 "lines": 1,979 "truncated": false,980 "block": 10,981 "row": 9648982 },983 {984 "path": "test/benchmark/test_data_loading.py",985 "sha256": "3acbd5d6ea296fa76ca403f90659deead255ceff3b5548e8c57a9338d7f6b4e9",986 "language": "Python",987 "lines": 143,988 "truncated": false,989 "block": 10,990 "row": 14034991 },992 {993 "path": "test/benchmark/test_metrics_calculation.py",994 "sha256": "bde6d83b41fdec9f8a98f55e63673ce8eb3a8a6ca29d7ca3c890df6ec7bb781d",995 "language": "Python",996 "lines": 89,997 "truncated": false,998 "block": 10,999 "row": 126781000 },1001 {1002 "path": "test/comparison/__init__.py",1003 "sha256": "939102e550849664ca25b97873eee81a3269fffb379f976dca42dd8499b78e65",1004 "language": "Python",1005 "lines": 1,1006 "truncated": false,1007 "block": 10,1008 "row": 96421009 },1010 {1011 "path": "test/comparison/test_binning.py",1012 "sha256": "e9070ebca6965f14a726c5eba1091ae17cb5c9289dfaa75e0fe5b412e480773b",1013 "language": "Python",1014 "lines": 929,1015 "truncated": false,1016 "block": 10,1017 "row": 172661018 },1019 {1020 "path": "test/comparison/test_comparable_region.py",1021 "sha256": "dfd1adc44791c393e4bb9ba2495bf2e3068ef50f5dd9b0355c2e5fe419d52ed9",1022 "language": "Python",1023 "lines": 266,1024 "truncated": false,1025 "block": 10,1026 "row": 151971027 },1028 {1029 "path": "test/comparison/test_extend.py",1030 "sha256": "bcec9bdb07dbd51140ff05c04737ece14a68680e4436806a0e459f65b8ea4a82",1031 "language": "Python",1032 "lines": 1045,1033 "truncated": false,1034 "block": 10,1035 "row": 174071036 },1037 {1038 "path": "test/comparison/test_lcs.py",1039 "sha256": "a93388bec9094137d377b218ef502a92c659b406319dea789c9c7f5261ca951c",1040 "language": "Python",1041 "lines": 522,1042 "truncated": false,1043 "block": 10,1044 "row": 165701045 },1046 {1047 "path": "test/comparison/test_scores.py",1048 "sha256": "f393f87e68d0c32c28ef14a4cd51e3c2d61a2324d448d780c62abe46d3c76c55",1049 "language": "Python",1050 "lines": 443,1051 "truncated": false,1052 "block": 10,1053 "row": 161171054 },1055 {1056 "path": "test/db/__init__.py",1057 "sha256": "32de3af06deebfc09898eabe830a913e7ce89f075d14935de305b3178aea2b24",1058 "language": "Python",1059 "lines": 1,1060 "truncated": false,1061 "block": 10,1062 "row": 96501063 },1064 {1065 "path": "test/db/test_partial.py",1066 "sha256": "0dee255e20a5b1a4f13b30695bbd74b4e047766834c915e374645e9523092102",1067 "language": "Python",1068 "lines": 521,1069 "truncated": false,1070 "block": 10,1071 "row": 162401072 },1073 {1074 "path": "test/db/test_sqlite.py",1075 "sha256": "e0e70db27715e5410a659e248d7f7e3ed377f05c344cfbbfbae75d895d088c1f",1076 "language": "Python",1077 "lines": 172,1078 "truncated": false,1079 "block": 10,1080 "row": 138941081 },1082 {1083 "path": "test/dereplicate/__init__.py",1084 "sha256": "637e414ac478054fc70ffaeb5c73eaf308fcf8a7660a4d892c68a1c235f62d0a",1085 "language": "Python",1086 "lines": 1,1087 "truncated": false,1088 "block": 10,1089 "row": 96351090 },1091 {1092 "path": "test/dereplicate/test_cds.py",1093 "sha256": "343bdd3e42ad539ebf4dba6d7d23fd3171a1b8d439cddeeb2000b2fbfac0cc5c",1094 "language": "Python",1095 "lines": 241,1096 "truncated": false,1097 "block": 10,1098 "row": 151541099 },1100 {1101 "path": "test/dereplicate/test_gbk.py",1102 "sha256": "f0c974c875f4d3694fcb54425c96b6642b82a22effbf528de4b473fe6913dad2",1103 "language": "Python",1104 "lines": 70,1105 "truncated": false,1106 "block": 10,1107 "row": 123141108 },1109 {1110 "path": "test/dereplicate/test_load_input.py",1111 "sha256": "3c7063be70956c9d954baba20a8bb5609d6967e4d2cc50a8ed3573f710e1f427",1112 "language": "Python",1113 "lines": 212,1114 "truncated": false,1115 "block": 10,1116 "row": 146861117 },1118 {1119 "path": "test/dereplicate/test_networking.py",1120 "sha256": "6663fc0512115909bb7fd606d35f3f950924fb052437164fe443f08dda8d9503",1121 "language": "Python",1122 "lines": 319,1123 "truncated": false,1124 "block": 10,1125 "row": 154951126 },1127 {1128 "path": "test/dereplicate/test_sourmash_utilities.py",1129 "sha256": "ca113dfc71671460817e98ce8913b87105509e38dd4dd0f252dd11c34826e180",1130 "language": "Python",1131 "lines": 188,1132 "truncated": false,1133 "block": 10,1134 "row": 144681135 },1136 {1137 "path": "test/diagnostics/__init__.py",1138 "sha256": "c48f5eb9b460ffe6ad14525d263f647710fcbdc87d7793fa7c2db340a6bc4883",1139 "language": "Python",1140 "lines": 1,1141 "truncated": false,1142 "block": 10,1143 "row": 96461144 },1145 {1146 "path": "test/diagnostics/test_profiler.py",1147 "sha256": "83f715dda83e80d3bdb26ef86f39a6fd1b710754caaa57550b0100cfc412ff4e",1148 "language": "Python",1149 "lines": 25,1150 "truncated": false,1151 "block": 10,1152 "row": 104641153 },1154 {1155 "path": "test/file_input/__init__.py",1156 "sha256": "c938f6870bc1ea1adbfc15fed38bf4d16b247b59ef9c51330cb9a4566ec53f5c",1157 "language": "Python",1158 "lines": 1,1159 "truncated": false,1160 "block": 10,1161 "row": 96431162 },1163 {1164 "path": "test/file_input/test_load_files.py",1165 "sha256": "8596a95bac673bb1117b8d26737b41f67b8579b1e6bd219901e37d1ac291a142",1166 "language": "Python",1167 "lines": 522,1168 "truncated": false,1169 "block": 10,1170 "row": 164371171 },1172 {1173 "path": "test/genbank/__init__.py",1174 "sha256": "0d397b1b5cb0fc358a25d67b5d493978cf27a8df9edbc5f19f3e00b179e8fbc6",1175 "language": "Python",1176 "lines": 1,1177 "truncated": false,1178 "block": 10,1179 "row": 97041180 },1181 {1182 "path": "test/genbank/test_bgc_record.py",1183 "sha256": "d6202b992a10ec630405beecdda63b838451864bd8cea076bb1fee6aa6dd27e6",1184 "language": "Python",1185 "lines": 295,1186 "truncated": false,1187 "block": 10,1188 "row": 153031189 },1190 {1191 "path": "test/genbank/test_cand_cluster.py",1192 "sha256": "bbf6e20048a67720be38c73212e613156e26efff289676fb05465db9f34a06dc",1193 "language": "Python",1194 "lines": 142,1195 "truncated": false,1196 "block": 10,1197 "row": 135631198 },1199 {1200 "path": "test/genbank/test_cds.py",