updating neurobiber PCA values
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mgaughan
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0ded278e9e
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421
p2/quest/121525_total_neurobiber-pca.log
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421
p2/quest/121525_total_neurobiber-pca.log
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starting the job at: Tue Dec 16 10:14:44 CST 2025
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setting up the environment
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running the neurobiber labeling script
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0 [The #Cloud-Services project tag is not intend...
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1 [Token is used for 2-factor auth., I'm surpris...
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2 [Oh, of course it's visible since you /might/ ...
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3 [Can this be closed?, We can now use the proxy...
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4 [Can this be closed?, We can now use the proxy...
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...
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26018 [LocalSettings.php lacks wgSecureLogin, wgCook...
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26019 [``CODE`CODE$wgSecureLoginCODE$wgServerCODE$wg...
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26020 [``CODE`CODE$wgSecureLoginCODE$wgServerCODE$wg...
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26021 [``CODE`CODE$wgSecureLoginCODE$wgServerCODE$wg...
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26022 [``CODE`CODE$wgSecureLoginCODE$wgServerCODE$wg...
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Name: olmo_cleaned_sentences, Length: 22172, dtype: object
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[[11. ]
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[15.5]
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[10.5]
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...
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[ 5. ]
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[ 5. ]
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[ 5. ]]
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Number of PCs explaining 90% variance: 25
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Variance of each PCA component: [226.26016489 149.72080608 76.13824024 65.84659233 60.86229348
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35.83902424 32.60176441 25.96606033 21.16336438 18.72865599
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16.54468721 14.84254647 11.35629294 10.92463002 9.32732926
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9.00220126 8.32992311 8.16541285 7.1981045 7.03685064
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6.65889481 6.46214766 6.23468215 5.81151603 5.51271131]
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PC1:
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normalized_CAP: 0.605
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normalized_NNP: 0.559
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median_sentence_length: -0.491
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normalized_DET: -0.122
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normalized_PREP: -0.112
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normalized_PIN: -0.112
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normalized_NN: -0.088
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normalized_ART: -0.088
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normalized_VPRT: -0.055
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normalized_JJ: -0.054
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PC2:
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median_sentence_length: 0.850
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normalized_NNP: 0.448
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normalized_CAP: 0.194
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normalized_DET: -0.086
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normalized_NN: -0.075
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normalized_VPRT: -0.061
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normalized_PREP: -0.055
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normalized_PIN: -0.055
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normalized_RB: -0.052
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normalized_AUXB: -0.049
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PC3:
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normalized_NN: 0.674
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normalized_CAP: 0.477
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normalized_NNP: -0.318
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normalized_PREP: 0.191
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normalized_PIN: 0.191
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normalized_RB: -0.178
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normalized_PRP: -0.156
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normalized_SBJP: -0.156
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normalized_VPRT: -0.104
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median_sentence_length: 0.103
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PC4:
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normalized_PREP: 0.452
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normalized_PIN: 0.452
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normalized_CAP: 0.384
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normalized_NN: -0.367
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normalized_PRP: 0.259
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normalized_SBJP: 0.259
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normalized_RB: 0.193
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normalized_INF: 0.174
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normalized_FPP1: 0.142
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normalized_NNP: -0.129
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PC5:
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normalized_PREP: 0.453
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normalized_PIN: 0.453
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normalized_NNP: 0.452
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normalized_CAP: -0.397
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normalized_RB: -0.299
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normalized_SBJP: -0.162
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normalized_PRP: -0.162
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median_sentence_length: -0.123
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normalized_CONJ: 0.115
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normalized_VPRT: -0.105
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PC6:
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normalized_DET: 0.679
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normalized_ART: 0.404
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normalized_VPRT: 0.301
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normalized_AUXB: 0.246
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normalized_NNP: 0.194
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normalized_INDA: 0.178
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normalized_NUM: -0.144
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normalized_DEMP: 0.123
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normalized_NN: 0.119
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normalized_BEMA: 0.114
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PC7:
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normalized_PRP: 0.483
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normalized_SBJP: 0.482
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normalized_NN: 0.463
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normalized_FPP1: 0.253
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normalized_NNP: 0.236
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normalized_RB: -0.191
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normalized_AUXB: -0.168
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normalized_PASS: -0.143
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normalized_CAP: -0.137
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normalized_PIT: 0.128
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PC8:
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normalized_RB: 0.807
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normalized_NN: 0.341
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normalized_NNP: 0.213
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normalized_NUM: -0.155
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normalized_CAP: -0.131
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normalized_DET: -0.127
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normalized_TIME: 0.121
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normalized_XX0: 0.112
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normalized_SPAU: 0.102
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normalized_PRP: -0.098
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PC9:
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normalized_JJ: 0.564
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normalized_INF: 0.376
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normalized_VPRT: -0.317
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sentence_count: 0.292
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normalized_NUM: -0.259
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normalized_ART: 0.235
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normalized_PASS: -0.217
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normalized_AUXB: -0.216
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normalized_CONJ: -0.141
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normalized_DET: 0.134
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PC10:
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normalized_JJ: 0.598
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normalized_INF: -0.518
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normalized_VPRT: 0.391
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normalized_DET: -0.256
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normalized_ART: -0.139
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normalized_NUM: -0.131
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normalized_AUXB: 0.125
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sentence_count: 0.108
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normalized_BEMA: 0.099
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normalized_TO: -0.092
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PC11:
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sentence_count: 0.551
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normalized_INF: -0.489
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normalized_AUXB: -0.303
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normalized_JJ: -0.264
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normalized_VPRT: -0.214
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normalized_ART: 0.198
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normalized_RB: 0.176
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normalized_TO: -0.157
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normalized_PASS: -0.141
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normalized_DET: 0.126
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PC12:
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sentence_count: 0.703
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normalized_VPRT: 0.320
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normalized_INF: 0.281
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normalized_JJ: -0.256
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normalized_AUXB: 0.242
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normalized_VBD: -0.229
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normalized_PASS: 0.141
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normalized_PUBV: -0.125
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normalized_ART: -0.120
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normalized_DET: -0.116
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PC13:
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normalized_NUM: 0.616
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normalized_VBD: -0.462
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normalized_AUXB: -0.281
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normalized_VPRT: 0.262
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normalized_PASS: -0.231
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normalized_ART: 0.158
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normalized_CONJ: 0.156
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normalized_INDA: 0.134
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normalized_TIME: -0.129
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normalized_DEMP: -0.124
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PC14:
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normalized_NUM: 0.422
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normalized_QUOT: -0.408
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normalized_VBD: 0.306
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normalized_CONT: -0.291
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normalized_JJ: 0.256
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normalized_AUXB: 0.255
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sentence_count: 0.232
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normalized_VPRT: -0.223
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normalized_PUBV: 0.201
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normalized_UH: -0.174
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PC15:
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normalized_QUOT: 0.480
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normalized_UH: -0.452
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normalized_CONT: 0.362
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normalized_VBD: 0.354
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normalized_PUBV: 0.349
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normalized_NUM: 0.225
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normalized_CONJ: -0.169
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normalized_STPR: 0.106
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normalized_VPRT: 0.104
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normalized_TO: 0.090
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PC16:
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normalized_PUBV: 0.449
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normalized_CONJ: -0.400
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normalized_QUOT: -0.371
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normalized_CONT: -0.298
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normalized_PGAS: 0.286
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normalized_VPRT: 0.246
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normalized_NOMZ: 0.230
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normalized_PASS: -0.217
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normalized_AUXB: -0.161
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normalized_JJ: -0.125
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PC17:
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normalized_UH: 0.749
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normalized_PGAS: -0.343
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normalized_PUBV: 0.277
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normalized_VBD: 0.195
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normalized_NOMZ: -0.176
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normalized_CCONJ: -0.136
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normalized_VPRT: 0.129
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normalized_X: -0.128
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normalized_QUOT: 0.110
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normalized_TIME: -0.106
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PC18:
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normalized_CONJ: 0.558
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normalized_PUBV: 0.445
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normalized_NUM: -0.342
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normalized_ART: 0.236
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normalized_NOMZ: 0.218
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normalized_DEMP: -0.172
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normalized_DET: -0.159
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normalized_UH: -0.157
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normalized_VPRT: 0.157
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normalized_PGAS: -0.141
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PC19:
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normalized_ART: 0.438
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normalized_CONJ: -0.353
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normalized_DEMO: -0.299
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normalized_DET: -0.284
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normalized_AUXB: 0.267
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normalized_PIT: 0.244
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normalized_DEMP: -0.238
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normalized_INDA: 0.228
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normalized_FPP1: -0.227
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normalized_PUBV: -0.161
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PC20:
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normalized_PGAS: 0.777
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normalized_X: -0.317
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normalized_UH: 0.244
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normalized_AUXB: 0.184
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normalized_CONJ: 0.178
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normalized_NUM: 0.144
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normalized_QUES: -0.140
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normalized_CONT: 0.137
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normalized_PUBV: 0.095
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normalized_QUOT: 0.095
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PC21:
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normalized_CCONJ: 0.582
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normalized_QUES: -0.386
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normalized_X: -0.268
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normalized_PRIV: 0.217
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normalized_BEMA: -0.203
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normalized_AUXB: -0.197
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normalized_VPRT: 0.191
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normalized_TIME: 0.173
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normalized_FPP1: 0.170
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normalized_CONJ: -0.141
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PC22:
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normalized_X: 0.639
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normalized_PRIV: 0.451
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normalized_QUES: -0.272
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normalized_CCONJ: -0.216
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normalized_VBD: 0.215
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normalized_CONJ: 0.196
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normalized_DEMO: -0.171
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normalized_FPP1: 0.150
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normalized_PGAS: 0.117
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normalized_SPP2: -0.101
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PC23:
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normalized_NOMZ: 0.580
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normalized_X: -0.394
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normalized_CCONJ: -0.381
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normalized_PRIV: 0.340
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normalized_PUBV: -0.191
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normalized_PASS: 0.140
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normalized_FPP1: 0.130
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normalized_PGAS: -0.127
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normalized_TIME: -0.124
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normalized_TO: -0.122
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PC24:
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normalized_QUES: 0.424
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normalized_CCONJ: 0.408
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normalized_CONJ: 0.286
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normalized_PRIV: 0.278
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normalized_VBD: 0.247
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normalized_WH: 0.231
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normalized_PUBV: -0.229
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normalized_PASS: -0.203
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normalized_SCONJ: 0.193
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normalized_TIME: -0.161
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PC25:
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normalized_NOMZ: 0.451
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normalized_DEMP: 0.404
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normalized_DEMO: -0.354
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normalized_PRIV: -0.226
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normalized_VBD: -0.219
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normalized_SPAU: 0.219
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normalized_INDA: -0.201
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normalized_UH: 0.169
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normalized_PEAS: -0.167
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normalized_NUM: 0.153
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Top 10 PC1 values:
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PC1 PC2 ... date_created comment_type
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2575 117.753138 51.176752 ... 1424754141 task_subcomment
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998 117.750117 51.170922 ... 1354316739 task_subcomment
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1011 117.750117 51.170922 ... 1359160095 task_subcomment
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1014 117.750117 51.170922 ... 1362102239 task_subcomment
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1016 117.750117 51.170922 ... 1362441994 task_subcomment
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1559 117.750117 51.170922 ... 1362478487 task_subcomment
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3911 117.750117 51.170922 ... 1344625237 task_subcomment
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3917 117.750117 51.170922 ... 1345813989 task_subcomment
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3923 117.750117 51.170922 ... 1348771229 task_subcomment
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3933 117.750117 51.170922 ... 1349619536 task_subcomment
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[10 rows x 36 columns]
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Bottom 10 PC1 values:
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PC1 PC2 ... date_created comment_type
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25853 -263.814907 444.911878 ... 1350678600 task_description
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4664 -227.278888 401.944364 ... 1463441072 task_subcomment
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4663 -227.088961 402.095691 ... 1463441050 task_subcomment
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18937 -147.873909 250.705670 ... 1380947348 task_subcomment
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18938 -147.873909 250.705670 ... 1380947348 task_subcomment
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11819 -146.279577 271.844540 ... 1354470131 task_subcomment
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7137 -111.434239 178.022308 ... 1374730027 task_subcomment
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14021 -105.059698 195.829065 ... 1440633395 task_subcomment
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712 -102.589613 179.044415 ... 1379611711 task_subcomment
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4661 -97.861683 158.793070 ... 1463439992 task_subcomment
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[10 rows x 36 columns]
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Top 10 PC2 values:
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PC1 PC2 ... date_created comment_type
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25853 -263.814907 444.911878 ... 1350678600 task_description
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4663 -227.088961 402.095691 ... 1463441050 task_subcomment
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4664 -227.278888 401.944364 ... 1463441072 task_subcomment
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11819 -146.279577 271.844540 ... 1354470131 task_subcomment
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18937 -147.873909 250.705670 ... 1380947348 task_subcomment
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18938 -147.873909 250.705670 ... 1380947348 task_subcomment
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14021 -105.059698 195.829065 ... 1440633395 task_subcomment
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712 -102.589613 179.044415 ... 1379611711 task_subcomment
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7137 -111.434239 178.022308 ... 1374730027 task_subcomment
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47 -93.548429 177.346008 ... 1441031208 task_subcomment
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[10 rows x 36 columns]
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Bottom 10 PC2 values:
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PC1 PC2 ... date_created comment_type
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12960 -7.559239 -20.524622 ... 1422554389 task_subcomment
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23743 -7.559239 -20.524622 ... 1462375135 task_subcomment
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20335 -7.550174 -20.507132 ... 1317586881 task_subcomment
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25842 -7.547152 -20.501302 ... 1327978205 task_subcomment
|
||||
19517 -10.124263 -19.546380 ... 1377104818 task_subcomment
|
||||
1394 -4.163268 -19.107198 ... 1321220595 task_subcomment
|
||||
1154 -5.357197 -18.669861 ... 1428954897 task_subcomment
|
||||
616 -14.810933 -18.487368 ... 1384635692 task_subcomment
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617 -14.810933 -18.487368 ... 1384635692 task_subcomment
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15258 -5.606616 -17.903726 ... 1412324629 task_subcomment
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[10 rows x 36 columns]
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Top 10 PC3 values:
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PC1 PC2 ... date_created comment_type
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1718 53.006784 -1.020596 ... 1375331403 task_subcomment
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3746 52.952393 -1.125535 ... 1456539439 task_subcomment
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||||
16384 52.952393 -1.125535 ... 1384994015 task_subcomment
|
||||
13327 52.949371 -1.131365 ... 1442087854 task_subcomment
|
||||
11596 22.205239 -9.975087 ... 1377544788 task_subcomment
|
||||
11597 22.205239 -9.975087 ... 1377544792 task_subcomment
|
||||
11599 22.205239 -9.975087 ... 1377545735 task_subcomment
|
||||
12417 56.876889 3.447518 ... 1350946140 task_subcomment
|
||||
13828 35.649201 -3.312173 ... 1434130529 task_subcomment
|
||||
3665 14.096589 -10.651178 ... 1374012685 task_subcomment
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[10 rows x 36 columns]
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Bottom 10 PC3 values:
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PC1 PC2 ... date_created comment_type
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106 57.740232 30.913077 ... 1453561068 task_subcomment
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107 57.740232 30.913077 ... 1453561129 task_subcomment
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172 57.740232 30.913077 ... 1420466644 task_subcomment
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173 57.740232 30.913077 ... 1420473867 task_subcomment
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524 57.740232 30.913077 ... 1491557250 task_subcomment
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525 57.740232 30.913077 ... 1491557269 task_subcomment
|
||||
1253 57.740232 30.913077 ... 1601272820 task_subcomment
|
||||
1276 57.740232 30.913077 ... 1431790268 task_subcomment
|
||||
1277 57.740232 30.913077 ... 1431790446 task_subcomment
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1328 57.740232 30.913077 ... 1624208185 task_subcomment
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[10 rows x 36 columns]
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Top 10 PC4 values:
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PC1 PC2 ... date_created comment_type
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14805 78.055845 24.070094 ... 1676690655 task_subcomment
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1160 30.338430 -4.905832 ... 1430255616 task_subcomment
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||||
14198 31.404810 -2.952579 ... 1399747303 task_subcomment
|
||||
1571 14.767571 -9.509647 ... 1424206043 task_subcomment
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||||
16080 50.035111 11.152005 ... 1355446597 task_subcomment
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||||
14116 32.879352 -2.867424 ... 1354149956 task_subcomment
|
||||
616 -14.810933 -18.487368 ... 1384635692 task_subcomment
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||||
617 -14.810933 -18.487368 ... 1384635692 task_subcomment
|
||||
21375 16.306772 -8.785275 ... 1361832639 task_subcomment
|
||||
13808 16.304506 -8.789647 ... 1438011707 task_subcomment
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[10 rows x 36 columns]
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Bottom 10 PC4 values:
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PC1 PC2 ... date_created comment_type
|
||||
12960 -7.559239 -20.524622 ... 1422554389 task_subcomment
|
||||
23743 -7.559239 -20.524622 ... 1462375135 task_subcomment
|
||||
20335 -7.550174 -20.507132 ... 1317586881 task_subcomment
|
||||
25842 -7.547152 -20.501302 ... 1327978205 task_subcomment
|
||||
1154 -5.357197 -18.669861 ... 1428954897 task_subcomment
|
||||
1399 -5.341802 -14.960571 ... 1328300138 task_subcomment
|
||||
15258 -5.606616 -17.903726 ... 1412324629 task_subcomment
|
||||
22066 8.796176 -12.108964 ... 1372042733 task_subcomment
|
||||
15293 1.994613 -10.713217 ... 1434020520 task_subcomment
|
||||
11596 22.205239 -9.975087 ... 1377544788 task_subcomment
|
||||
|
||||
[10 rows x 36 columns]
|
||||
job finished, cleaning up
|
||||
job pau at: Tue Dec 16 10:15:20 CST 2025
|
||||
BIN
p2/quest/121525_total_pca.pkl
Normal file
BIN
p2/quest/121525_total_pca.pkl
Normal file
Binary file not shown.
135793
p2/quest/121525_total_pca_df.csv
Normal file
135793
p2/quest/121525_total_pca_df.csv
Normal file
File diff suppressed because one or more lines are too long
@ -85,10 +85,10 @@ def format_df_data(df):
|
||||
return x
|
||||
|
||||
if __name__ == "__main__":
|
||||
biber_vec_df = pd.read_csv("/home/nws8519/git/mw-lifecycle-analysis/analysis_data/100325_unified_phab.csv", low_memory=False)
|
||||
biber_vec_df = pd.read_csv("/home/nws8519/git/mw-lifecycle-analysis/analysis_data/120725_unified.csv", low_memory=False)
|
||||
#biber_vec_df = biber_vec_df[biber_vec_df['comment_type'] != 'task_description']
|
||||
#biber_vec_df = biber_vec_df[biber_vec_df['AuthorPHID'] != "PHID-USER-idceizaw6elwiwm5xshb"]
|
||||
#biber_vec_df = biber_vec_df[biber_vec_df['comment_text'] != 'nan']
|
||||
biber_vec_df = biber_vec_df[biber_vec_df['AuthorPHID'] != "PHID-USER-idceizaw6elwiwm5xshb"]
|
||||
biber_vec_df = biber_vec_df[biber_vec_df['comment_text'] != 'nan']
|
||||
biber_vecs = format_df_data(biber_vec_df)
|
||||
#handoff to PCA model
|
||||
|
||||
@ -103,7 +103,7 @@ if __name__ == "__main__":
|
||||
|
||||
pca = PCA(n_components=argmax_components)
|
||||
biber_vecs_pca = pca.fit_transform(biber_vecs)
|
||||
with open('102025_total_pca.pkl', 'wb') as f:
|
||||
with open('121525_total_pca.pkl', 'wb') as f:
|
||||
pickle.dump(pca, f)
|
||||
selected_axis = "AuthorWMFAffil"
|
||||
|
||||
@ -136,7 +136,7 @@ if __name__ == "__main__":
|
||||
|
||||
|
||||
plot_df = pd.DataFrame(pc_dict)
|
||||
plot_df.to_csv("102025_total_pca_df.csv", index=False)
|
||||
plot_df.to_csv("121525_total_pca_df.csv", index=False)
|
||||
|
||||
print("Top 10 PC1 values:")
|
||||
print(plot_df.nlargest(10, "PC1"))
|
||||
@ -148,17 +148,13 @@ if __name__ == "__main__":
|
||||
print("\nBottom 10 PC2 values:")
|
||||
print(plot_df.nsmallest(10, "PC2"))
|
||||
|
||||
print("Top 10 PC3 values:")
|
||||
print(plot_df.nlargest(10, "PC3"))
|
||||
print("\nBottom 10 PC3 values:")
|
||||
print(plot_df.nsmallest(10, "PC3"))
|
||||
|
||||
#g = sns.FacetGrid(plot_df, col="source", row="phase", hue=selected_axis, palette="tab10", height=4, sharex=False, sharey=False)
|
||||
#g.map_dataframe(sns.scatterplot, x="PC1", y="PC2", alpha=0.7, s=40)
|
||||
#g.add_legend(title=selected_axis)
|
||||
#g.set_axis_labels("PC1", "PC2")
|
||||
#g.fig.subplots_adjust(top=0.9)
|
||||
#g.fig.suptitle(f"PCA by {selected_axis}, faceted by source")
|
||||
print("Top 10 PC4 values:")
|
||||
print(plot_df.nlargest(10, "PC4"))
|
||||
print("\nBottom 10 PC4 values:")
|
||||
print(plot_df.nsmallest(10, "PC4"))
|
||||
|
||||
#plt.savefig("090225_biber_pca_plot.png", dpi=300)
|
||||
'''
|
||||
#g.fig.tight_layout()
|
||||
#g.savefig(f"subcomment_{selected_axis}_100125_biber_pca_final.png", dpi=300)
|
||||
#plt.show()
|
||||
'''
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
#SBATCH --mem=64G
|
||||
#SBATCH --cpus-per-task=4
|
||||
#SBATCH --job-name=neurobiber-pca
|
||||
#SBATCH --output=102025_total_neurobiber-pca.log
|
||||
#SBATCH --output=121525_total_neurobiber-pca.log
|
||||
#SBATCH --mail-type=BEGIN,END,FAIL
|
||||
#SBATCH --mail-user=gaughan@u.northwestern.edu
|
||||
|
||||
|
||||
Loading…
Reference in New Issue
Block a user