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  1. stages:
  2. preprocess_berger:
  3. cmd: cp downloaded-data/berger.csv data && echo "data/berger.csv" >> .gitignore
  4. && git add .gitignore
  5. deps:
  6. - downloaded-data/berger.csv
  7. outs:
  8. - data/berger.csv:
  9. cache: false
  10. preprocess_herzig:
  11. cmd: cp downloaded-data/herzig.csv data && echo "data/herzig.csv" >> .gitignore
  12. && git add .gitignore
  13. deps:
  14. - downloaded-data/herzig.csv
  15. outs:
  16. - data/herzig.csv:
  17. cache: false
  18. preprocess_1151-commits:
  19. cmd: cp downloaded-data/1151-commits.csv data && echo "data/1151-commits.csv"
  20. >> .gitignore && git add .gitignore
  21. deps:
  22. - downloaded-data/1151-commits.csv
  23. outs:
  24. - data/1151-commits.csv:
  25. cache: false
  26. preprocess_200k-commits:
  27. cmd: cp downloaded-data/200k-commits.csv data && echo "data/200k-commits.csv"
  28. >> .gitignore && git add .gitignore
  29. deps:
  30. - downloaded-data/200k-commits.csv
  31. outs:
  32. - data/200k-commits.csv:
  33. cache: false
  34. preprocess_200k-commits-issues:
  35. cmd: cp downloaded-data/200k-commits-issues.csv data && echo "data/200k-commits-issues.csv"
  36. >> .gitignore && git add .gitignore
  37. deps:
  38. - downloaded-data/200k-commits-issues.csv
  39. outs:
  40. - data/200k-commits-issues.csv:
  41. cache: false
  42. preprocess_200k-commits-files:
  43. cmd: 7z x downloaded-data/200k-commits-files.csv.7z -odata && echo "data/200k-commits-files.csv"
  44. >> .gitignore && git add .gitignore
  45. deps:
  46. - downloaded-data/200k-commits-files.csv.7z
  47. outs:
  48. - data/200k-commits-files.csv:
  49. cache: false
  50. preprocess_200k-commits-link-issues:
  51. cmd: cp downloaded-data/200k-commits-link-issues.csv data && echo "data/200k-commits-link-issues.csv"
  52. >> .gitignore && git add .gitignore
  53. deps:
  54. - downloaded-data/200k-commits-link-issues.csv
  55. outs:
  56. - data/200k-commits-link-issues.csv:
  57. cache: false
  58. preprocess_200k-commits-manual-labels:
  59. cmd: cp downloaded-data/200k-commits-manual-labels.csv data && echo "data/200k-commits-manual-labels.csv"
  60. >> .gitignore && git add .gitignore
  61. deps:
  62. - downloaded-data/200k-commits-manual-labels.csv
  63. outs:
  64. - data/200k-commits-manual-labels.csv:
  65. cache: false
  66. preprocess_smells-train:
  67. cmd: data-preprocessing/smells.sh
  68. deps:
  69. - data-preprocessing/smells.sh
  70. - downloaded-data/smells-madeyski.csv
  71. outs:
  72. - data/smells/train.csv
  73. preprocess_smells-test:
  74. cmd: data-preprocessing/smells.sh
  75. deps:
  76. - data-preprocessing/smells.sh
  77. - downloaded-data/smells-madeyski.csv
  78. outs:
  79. - data/smells/test.csv
  80. parse_labels:
  81. cmd: bohr parse-labels
  82. deps:
  83. - labels
  84. outs:
  85. - labels.py:
  86. cache: false
  87. bugginess_apply_heuristics__heuristics_bugginess__200k-commits:
  88. cmd: bohr apply-heuristics bugginess --heuristic-group heuristics.bugginess --dataset
  89. 200k-commits
  90. deps:
  91. - data/200k-commits-files.csv
  92. - data/200k-commits-issues.csv
  93. - data/200k-commits-manual-labels.csv
  94. - data/200k-commits.csv
  95. - heuristics/bugginess.py
  96. - labels.py
  97. params:
  98. - bohr.json:
  99. - bohr_framework_version
  100. outs:
  101. - generated/bugginess/heuristics.bugginess/heuristic_matrix_200k-commits.pkl
  102. metrics:
  103. - metrics/bugginess/heuristics.bugginess/heuristic_metrics_200k-commits.json:
  104. cache: false
  105. bugginess_apply_heuristics__heuristics_bugginess__1151-commits:
  106. cmd: bohr apply-heuristics bugginess --heuristic-group heuristics.bugginess --dataset
  107. 1151-commits
  108. deps:
  109. - data/1151-commits.csv
  110. - heuristics/bugginess.py
  111. - labels.py
  112. params:
  113. - bohr.json:
  114. - bohr_framework_version
  115. outs:
  116. - generated/bugginess/heuristics.bugginess/heuristic_matrix_1151-commits.pkl
  117. metrics:
  118. - metrics/bugginess/heuristics.bugginess/heuristic_metrics_1151-commits.json:
  119. cache: false
  120. bugginess_apply_heuristics__heuristics_bugginess__berger:
  121. cmd: bohr apply-heuristics bugginess --heuristic-group heuristics.bugginess --dataset
  122. berger
  123. deps:
  124. - data/berger.csv
  125. - heuristics/bugginess.py
  126. - labels.py
  127. params:
  128. - bohr.json:
  129. - bohr_framework_version
  130. outs:
  131. - generated/bugginess/heuristics.bugginess/heuristic_matrix_berger.pkl
  132. metrics:
  133. - metrics/bugginess/heuristics.bugginess/heuristic_metrics_berger.json:
  134. cache: false
  135. bugginess_apply_heuristics__heuristics_bugginess__herzig:
  136. cmd: bohr apply-heuristics bugginess --heuristic-group heuristics.bugginess --dataset
  137. herzig
  138. deps:
  139. - data/herzig.csv
  140. - heuristics/bugginess.py
  141. - labels.py
  142. params:
  143. - bohr.json:
  144. - bohr_framework_version
  145. outs:
  146. - generated/bugginess/heuristics.bugginess/heuristic_matrix_herzig.pkl
  147. metrics:
  148. - metrics/bugginess/heuristics.bugginess/heuristic_metrics_herzig.json:
  149. cache: false
  150. bugginess_apply_heuristics__heuristics_idans_models__200k-commits:
  151. cmd: bohr apply-heuristics bugginess --heuristic-group heuristics.idans_models
  152. --dataset 200k-commits
  153. deps:
  154. - data/200k-commits-files.csv
  155. - data/200k-commits-issues.csv
  156. - data/200k-commits-manual-labels.csv
  157. - data/200k-commits.csv
  158. - heuristics/idans_models.py
  159. - labels.py
  160. params:
  161. - bohr.json:
  162. - bohr_framework_version
  163. outs:
  164. - generated/bugginess/heuristics.idans_models/heuristic_matrix_200k-commits.pkl
  165. metrics:
  166. - metrics/bugginess/heuristics.idans_models/heuristic_metrics_200k-commits.json:
  167. cache: false
  168. bugginess_apply_heuristics__heuristics_idans_models__1151-commits:
  169. cmd: bohr apply-heuristics bugginess --heuristic-group heuristics.idans_models
  170. --dataset 1151-commits
  171. deps:
  172. - data/1151-commits.csv
  173. - heuristics/idans_models.py
  174. - labels.py
  175. params:
  176. - bohr.json:
  177. - bohr_framework_version
  178. outs:
  179. - generated/bugginess/heuristics.idans_models/heuristic_matrix_1151-commits.pkl
  180. metrics:
  181. - metrics/bugginess/heuristics.idans_models/heuristic_metrics_1151-commits.json:
  182. cache: false
  183. bugginess_apply_heuristics__heuristics_idans_models__berger:
  184. cmd: bohr apply-heuristics bugginess --heuristic-group heuristics.idans_models
  185. --dataset berger
  186. deps:
  187. - data/berger.csv
  188. - heuristics/idans_models.py
  189. - labels.py
  190. params:
  191. - bohr.json:
  192. - bohr_framework_version
  193. outs:
  194. - generated/bugginess/heuristics.idans_models/heuristic_matrix_berger.pkl
  195. metrics:
  196. - metrics/bugginess/heuristics.idans_models/heuristic_metrics_berger.json:
  197. cache: false
  198. bugginess_apply_heuristics__heuristics_idans_models__herzig:
  199. cmd: bohr apply-heuristics bugginess --heuristic-group heuristics.idans_models
  200. --dataset herzig
  201. deps:
  202. - data/herzig.csv
  203. - heuristics/idans_models.py
  204. - labels.py
  205. params:
  206. - bohr.json:
  207. - bohr_framework_version
  208. outs:
  209. - generated/bugginess/heuristics.idans_models/heuristic_matrix_herzig.pkl
  210. metrics:
  211. - metrics/bugginess/heuristics.idans_models/heuristic_metrics_herzig.json:
  212. cache: false
  213. bugginess_apply_heuristics__heuristics_manuallabels__200k-commits:
  214. cmd: bohr apply-heuristics bugginess --heuristic-group heuristics.manuallabels
  215. --dataset 200k-commits
  216. deps:
  217. - data/200k-commits-files.csv
  218. - data/200k-commits-issues.csv
  219. - data/200k-commits-manual-labels.csv
  220. - data/200k-commits.csv
  221. - heuristics/manuallabels.py
  222. - labels.py
  223. params:
  224. - bohr.json:
  225. - bohr_framework_version
  226. outs:
  227. - generated/bugginess/heuristics.manuallabels/heuristic_matrix_200k-commits.pkl
  228. metrics:
  229. - metrics/bugginess/heuristics.manuallabels/heuristic_metrics_200k-commits.json:
  230. cache: false
  231. bugginess_apply_heuristics__heuristics_manuallabels__1151-commits:
  232. cmd: bohr apply-heuristics bugginess --heuristic-group heuristics.manuallabels
  233. --dataset 1151-commits
  234. deps:
  235. - data/1151-commits.csv
  236. - heuristics/manuallabels.py
  237. - labels.py
  238. params:
  239. - bohr.json:
  240. - bohr_framework_version
  241. outs:
  242. - generated/bugginess/heuristics.manuallabels/heuristic_matrix_1151-commits.pkl
  243. metrics:
  244. - metrics/bugginess/heuristics.manuallabels/heuristic_metrics_1151-commits.json:
  245. cache: false
  246. bugginess_apply_heuristics__heuristics_manuallabels__berger:
  247. cmd: bohr apply-heuristics bugginess --heuristic-group heuristics.manuallabels
  248. --dataset berger
  249. deps:
  250. - data/berger.csv
  251. - heuristics/manuallabels.py
  252. - labels.py
  253. params:
  254. - bohr.json:
  255. - bohr_framework_version
  256. outs:
  257. - generated/bugginess/heuristics.manuallabels/heuristic_matrix_berger.pkl
  258. metrics:
  259. - metrics/bugginess/heuristics.manuallabels/heuristic_metrics_berger.json:
  260. cache: false
  261. bugginess_apply_heuristics__heuristics_manuallabels__herzig:
  262. cmd: bohr apply-heuristics bugginess --heuristic-group heuristics.manuallabels
  263. --dataset herzig
  264. deps:
  265. - data/herzig.csv
  266. - heuristics/manuallabels.py
  267. - labels.py
  268. params:
  269. - bohr.json:
  270. - bohr_framework_version
  271. outs:
  272. - generated/bugginess/heuristics.manuallabels/heuristic_matrix_herzig.pkl
  273. metrics:
  274. - metrics/bugginess/heuristics.manuallabels/heuristic_metrics_herzig.json:
  275. cache: false
  276. bugginess_combine_heuristics:
  277. cmd: bohr apply-heuristics bugginess
  278. deps:
  279. - generated/bugginess/heuristics.bugginess/heuristic_matrix_1151-commits.pkl
  280. - generated/bugginess/heuristics.bugginess/heuristic_matrix_200k-commits.pkl
  281. - generated/bugginess/heuristics.bugginess/heuristic_matrix_berger.pkl
  282. - generated/bugginess/heuristics.bugginess/heuristic_matrix_herzig.pkl
  283. - generated/bugginess/heuristics.idans_models/heuristic_matrix_1151-commits.pkl
  284. - generated/bugginess/heuristics.idans_models/heuristic_matrix_200k-commits.pkl
  285. - generated/bugginess/heuristics.idans_models/heuristic_matrix_berger.pkl
  286. - generated/bugginess/heuristics.idans_models/heuristic_matrix_herzig.pkl
  287. - generated/bugginess/heuristics.manuallabels/heuristic_matrix_1151-commits.pkl
  288. - generated/bugginess/heuristics.manuallabels/heuristic_matrix_200k-commits.pkl
  289. - generated/bugginess/heuristics.manuallabels/heuristic_matrix_berger.pkl
  290. - generated/bugginess/heuristics.manuallabels/heuristic_matrix_herzig.pkl
  291. params:
  292. - bohr.json:
  293. - bohr_framework_version
  294. outs:
  295. - generated/bugginess/analysis_1151-commits.csv:
  296. cache: false
  297. - generated/bugginess/analysis_200k-commits.csv:
  298. cache: false
  299. - generated/bugginess/analysis_berger.csv:
  300. cache: false
  301. - generated/bugginess/analysis_herzig.csv:
  302. cache: false
  303. - generated/bugginess/heuristic_matrix_1151-commits.pkl
  304. - generated/bugginess/heuristic_matrix_200k-commits.pkl
  305. - generated/bugginess/heuristic_matrix_berger.pkl
  306. - generated/bugginess/heuristic_matrix_herzig.pkl
  307. metrics:
  308. - metrics/bugginess/analysis_1151-commits.json:
  309. cache: false
  310. - metrics/bugginess/analysis_200k-commits.json:
  311. cache: false
  312. - metrics/bugginess/analysis_berger.json:
  313. cache: false
  314. - metrics/bugginess/analysis_herzig.json:
  315. cache: false
  316. - metrics/bugginess/heuristic_metrics_1151-commits.json:
  317. cache: false
  318. - metrics/bugginess/heuristic_metrics_200k-commits.json:
  319. cache: false
  320. - metrics/bugginess/heuristic_metrics_berger.json:
  321. cache: false
  322. - metrics/bugginess/heuristic_metrics_herzig.json:
  323. cache: false
  324. bugginess_train_label_model:
  325. cmd: bohr train-label-model bugginess 200k-commits
  326. deps:
  327. - data/1151-commits.csv
  328. - data/berger.csv
  329. - data/herzig.csv
  330. - generated/bugginess/heuristic_matrix_1151-commits.pkl
  331. - generated/bugginess/heuristic_matrix_200k-commits.pkl
  332. - generated/bugginess/heuristic_matrix_berger.pkl
  333. - generated/bugginess/heuristic_matrix_herzig.pkl
  334. params:
  335. - bohr.json:
  336. - bohr_framework_version
  337. outs:
  338. - generated/bugginess/label_model.pkl
  339. - generated/bugginess/label_model_weights.csv:
  340. cache: false
  341. metrics:
  342. - metrics/bugginess/label_model_metrics.json:
  343. cache: false
  344. bugginess_label_dataset_200k-commits:
  345. cmd: bohr label-dataset bugginess 200k-commits
  346. deps:
  347. - data/200k-commits.csv
  348. - generated/bugginess/heuristic_matrix_200k-commits.pkl
  349. - generated/bugginess/label_model.pkl
  350. params:
  351. - bohr.json:
  352. - bohr_framework_version
  353. outs:
  354. - labeled-datasets/200k-commits.labeled.csv
  355. bugginess_label_dataset_1151-commits:
  356. cmd: bohr label-dataset bugginess 1151-commits
  357. deps:
  358. - data/1151-commits.csv
  359. - generated/bugginess/heuristic_matrix_1151-commits.pkl
  360. - generated/bugginess/label_model.pkl
  361. params:
  362. - bohr.json:
  363. - bohr_framework_version
  364. outs:
  365. - labeled-datasets/1151-commits.labeled.csv
  366. bugginess_label_dataset_berger:
  367. cmd: bohr label-dataset bugginess berger
  368. deps:
  369. - data/berger.csv
  370. - generated/bugginess/heuristic_matrix_berger.pkl
  371. - generated/bugginess/label_model.pkl
  372. params:
  373. - bohr.json:
  374. - bohr_framework_version
  375. outs:
  376. - labeled-datasets/berger.labeled.csv
  377. bugginess_label_dataset_herzig:
  378. cmd: bohr label-dataset bugginess herzig
  379. deps:
  380. - data/herzig.csv
  381. - generated/bugginess/heuristic_matrix_herzig.pkl
  382. - generated/bugginess/label_model.pkl
  383. params:
  384. - bohr.json:
  385. - bohr_framework_version
  386. outs:
  387. - labeled-datasets/herzig.labeled.csv
  388. smells_apply_heuristics__heuristics_smells__smells-train:
  389. cmd: bohr apply-heuristics smells --heuristic-group heuristics.smells --dataset
  390. smells-train
  391. deps:
  392. - data/smells/train.csv
  393. - heuristics/smells.py
  394. - labels.py
  395. params:
  396. - bohr.json:
  397. - bohr_framework_version
  398. outs:
  399. - generated/smells/heuristics.smells/heuristic_matrix_smells-train.pkl
  400. metrics:
  401. - metrics/smells/heuristics.smells/heuristic_metrics_smells-train.json:
  402. cache: false
  403. smells_apply_heuristics__heuristics_smells__smells-test:
  404. cmd: bohr apply-heuristics smells --heuristic-group heuristics.smells --dataset
  405. smells-test
  406. deps:
  407. - data/smells/test.csv
  408. - heuristics/smells.py
  409. - labels.py
  410. params:
  411. - bohr.json:
  412. - bohr_framework_version
  413. outs:
  414. - generated/smells/heuristics.smells/heuristic_matrix_smells-test.pkl
  415. metrics:
  416. - metrics/smells/heuristics.smells/heuristic_metrics_smells-test.json:
  417. cache: false
  418. smells_combine_heuristics:
  419. cmd: bohr apply-heuristics smells
  420. deps:
  421. - generated/smells/heuristics.smells/heuristic_matrix_smells-test.pkl
  422. - generated/smells/heuristics.smells/heuristic_matrix_smells-train.pkl
  423. params:
  424. - bohr.json:
  425. - bohr_framework_version
  426. outs:
  427. - generated/smells/analysis_smells-test.csv:
  428. cache: false
  429. - generated/smells/analysis_smells-train.csv:
  430. cache: false
  431. - generated/smells/heuristic_matrix_smells-test.pkl
  432. - generated/smells/heuristic_matrix_smells-train.pkl
  433. metrics:
  434. - metrics/smells/analysis_smells-test.json:
  435. cache: false
  436. - metrics/smells/analysis_smells-train.json:
  437. cache: false
  438. - metrics/smells/heuristic_metrics_smells-test.json:
  439. cache: false
  440. - metrics/smells/heuristic_metrics_smells-train.json:
  441. cache: false
  442. smells_train_label_model:
  443. cmd: bohr train-label-model smells smells-train
  444. deps:
  445. - data/smells/test.csv
  446. - generated/smells/heuristic_matrix_smells-test.pkl
  447. - generated/smells/heuristic_matrix_smells-train.pkl
  448. params:
  449. - bohr.json:
  450. - bohr_framework_version
  451. outs:
  452. - generated/smells/label_model.pkl
  453. - generated/smells/label_model_weights.csv:
  454. cache: false
  455. metrics:
  456. - metrics/smells/label_model_metrics.json:
  457. cache: false
  458. smells_label_dataset_smells-train:
  459. cmd: bohr label-dataset smells smells-train
  460. deps:
  461. - data/smells/train.csv
  462. - generated/smells/heuristic_matrix_smells-train.pkl
  463. - generated/smells/label_model.pkl
  464. params:
  465. - bohr.json:
  466. - bohr_framework_version
  467. outs:
  468. - labeled-datasets/smells-train.labeled.csv
  469. smells_label_dataset_smells-test:
  470. cmd: bohr label-dataset smells smells-test
  471. deps:
  472. - data/smells/test.csv
  473. - generated/smells/heuristic_matrix_smells-test.pkl
  474. - generated/smells/label_model.pkl
  475. params:
  476. - bohr.json:
  477. - bohr_framework_version
  478. outs:
  479. - labeled-datasets/smells-test.labeled.csv
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