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batch scripts
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scarletg committed Nov 19, 2018
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Showing 18 changed files with 3,811 additions and 44 deletions.
5 changes: 5 additions & 0 deletions batch_tests/analysis/census_001/census_001_1_omit['init', 'lang']_weights.csv
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featurizer <class 'repair.featurize.initsimfeat.InitSimFeaturizer'>,size 41,weight -0.2339 | -0.0 | -0.0384 | -0.0804 | 0.0385 | 0.0726 | -0.0446 | 0.0 | -0.0689 | 0.0426 | -0.0524 | 0.0358 | -0.004 | -0.0738 | -0.1293 | -0.0278 | 0.0456 | -0.0266 | 0.1648 | 0.0 | -0.0681 | 0.0005 | 0.0 | 0.011 | -0.2531 | 0.0026 | -0.0846 | -0.0672 | -0.0185 | -0.0776 | 0.0 | -0.0 | -0.0668 | -0.0519 | -0.0589 | -0.0683 | 0.0184 | -0.0305 | 0.0001 | -0.0663 | -0.0782,max 0.1648,min -0.2531,avg -0.0326243902439,abs_avg 0.0537219512195
featurizer <class 'repair.featurize.constraintfeat.ConstraintFeat'>,size 31,weight 0.0 | 0.032 | -0.0001 | 0.0044 | -0.0 | 0.0 | -0.0 | 0.0031 | 0.0 | -0.0248 | -0.0 | 0.0 | -0.0 | 0.0271 | -0.0003 | 0.0075 | 0.0 | -0.05 | -0.0 | 0.0 | 0.0 | 0.0277 | 0.0 | -0.0476 | 0.0 | -0.0001 | -0.0028 | 0.0 | -0.2232 | 0.0462 | 0.0,max 0.0462,min -0.2232,avg -0.00648064516129,abs_avg 0.0160290322581
featurizer <class 'repair.featurize.initattfeat.InitAttFeaturizer'>,size 41,weight 0.4218 | -0.0 | 0.0534 | 0.1231 | 1.2453 | 0.38 | 0.3468 | 0.0 | 0.6919 | 1.0666 | 0.4988 | 0.4189 | 0.8258 | 0.1477 | 0.2329 | 0.0676 | 0.3935 | 0.2108 | 0.6271 | 0.0 | 0.1672 | 0.5232 | 0.0 | 0.8447 | 0.5025 | 0.5828 | 0.1434 | 0.1172 | 0.4524 | 0.1709 | 0.0 | 0.0 | 0.1377 | 0.1197 | 0.1157 | 0.1374 | 0.65 | 0.0842 | 0.0022 | 0.1287 | 0.5203,max 1.2453,min -0.0,avg 0.320785365854,abs_avg 0.320785365854
featurizer <class 'repair.featurize.freqfeat.FreqFeaturizer'>,size 41,weight -0.0002 | 0.0 | 0.0288 | 0.0493 | -0.0365 | -0.0879 | -0.0281 | 0.0 | 0.0003 | 0.0018 | -0.0478 | -0.0892 | 0.002 | 0.0645 | -0.0345 | 0.0278 | -0.0864 | 0.0124 | -0.2019 | 0.0 | 0.0575 | 0.0217 | 0.0 | -0.0135 | -0.0 | -0.0106 | 0.072 | 0.0569 | 0.0109 | 0.0691 | -0.0 | 0.0 | 0.0543 | 0.0421 | 0.0531 | 0.0606 | -0.1208 | -0.0184 | 0.0 | 0.0663 | -0.0433,max 0.072,min -0.2019,avg -0.0016512195122,abs_avg 0.0383048780488
featurizer <class 'repair.featurize.occurfeat.OccurFeaturizer'>,size 41,weight 0.186 | 0.0638 | 0.4465 | 0.5842 | 0.1245 | -0.0212 | -0.1553 | -0.0247 | 0.0956 | 0.0106 | -0.135 | -0.081 | -0.1491 | -0.15 | -0.1469 | -0.2644 | -0.0342 | -0.1692 | 0.133 | 0.028 | 0.1682 | 0.2554 | 0.5222 | 0.0397 | 2.0827 | 0.1166 | 0.2215 | 0.2301 | 0.0197 | 0.1284 | -0.0214 | -0.0271 | -0.0444 | -0.0406 | -0.0706 | -0.1777 | -0.0707 | -0.0666 | 0.0102 | -0.2745 | -0.0598,max 2.0827,min -0.2745,avg 0.0800609756098,abs_avg 0.186617073171
5 changes: 5 additions & 0 deletions batch_tests/analysis/census_001/census_001_2_omit['init', 'lang']_weights.csv
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featurizer <class 'repair.featurize.initsimfeat.InitSimFeaturizer'>,size 41,weight -0.2418 | 0.0 | -0.039 | -0.071 | 0.0372 | 0.09 | -0.0261 | 0.0 | -0.068 | -0.0034 | -0.0394 | 0.0478 | -0.007 | -0.0732 | -0.1314 | -0.0257 | 0.017 | -0.0207 | 0.1897 | 0.0 | -0.0693 | 0.0065 | 0.0 | 0.0096 | -0.2656 | 0.0155 | -0.0825 | -0.0671 | -0.0112 | -0.0753 | -0.0059 | -0.0026 | -0.0622 | -0.0511 | -0.0569 | -0.0414 | 0.0371 | -0.0233 | -0.0846 | -0.0649 | -0.0164,max 0.1897,min -0.2656,avg -0.0311365853659,abs_avg 0.0531073170732
featurizer <class 'repair.featurize.constraintfeat.ConstraintFeat'>,size 50,weight 0.0626 | -0.0 | 0.0395 | -0.0 | -0.1177 | 0.0191 | -0.0 | -0.0 | -0.075 | 0.0 | 0.039 | 0.0 | -0.0598 | -0.012 | 0.0 | -0.0 | 0.0028 | -0.0 | 0.0007 | 0.0 | -0.2314 | 0.0104 | 0.0 | 0.0391 | 0.0 | 0.0215 | -0.0333 | 0.0438 | 0.0128 | -0.0276 | 0.0284 | -0.0 | 0.0694 | -0.0 | -0.0278 | 0.0284 | -0.0004 | -0.0151 | 0.0261 | -0.0 | -0.0482 | -0.0132 | 0.021 | 0.027 | 0.0 | -0.0 | 0.039 | -0.0 | 0.0441 | 0.0001,max 0.0694,min -0.2314,avg -0.001734,abs_avg 0.024726
featurizer <class 'repair.featurize.initattfeat.InitAttFeaturizer'>,size 41,weight 0.4382 | 0.0 | 0.0582 | 0.1192 | 1.2877 | 0.4068 | 0.1013 | 0.0 | 0.7344 | 0.0157 | 0.5276 | 0.4482 | 0.8596 | 0.1471 | 0.2406 | 0.0615 | 0.2596 | 0.2149 | 0.6752 | 0.0 | 0.1396 | 0.5421 | 0.0 | 0.8779 | 0.5298 | 0.5923 | 0.1392 | 0.1162 | 0.4504 | 0.1639 | 0.215 | 0.0287 | 0.1272 | 0.1155 | 0.1142 | 0.1929 | 0.6833 | 0.1358 | 0.4275 | 0.1231 | 0.073,max 1.2877,min 0.0,avg 0.302034146341,abs_avg 0.302034146341
featurizer <class 'repair.featurize.freqfeat.FreqFeaturizer'>,size 41,weight -0.0002 | 0.0 | 0.0292 | 0.0413 | -0.0393 | -0.1099 | 0.024 | 0.0 | 0.0006 | 0.0002 | -0.0653 | -0.0987 | 0.002 | 0.0641 | -0.047 | 0.0257 | -0.0209 | 0.0016 | -0.2357 | -0.0 | 0.057 | 0.0152 | -0.0 | -0.0147 | -0.0 | -0.0206 | 0.0703 | 0.0568 | 0.0059 | 0.0675 | -0.0027 | 0.0073 | 0.0507 | 0.0418 | 0.0519 | 0.0425 | -0.1447 | -0.0132 | 0.0101 | 0.0649 | 0.0338,max 0.0703,min -0.2357,avg -0.00118292682927,abs_avg 0.0384707317073
featurizer <class 'repair.featurize.occurfeat.OccurFeaturizer'>,size 41,weight 0.1251 | 0.1411 | 0.442 | 0.1855 | 0.0942 | 0.0087 | -0.206 | -0.0246 | 0.0808 | 0.11 | -0.1034 | -0.0375 | -0.1407 | -0.1123 | -0.1213 | -0.247 | -0.1135 | -0.1626 | 0.1348 | 0.0605 | 0.188 | 0.2699 | 0.526 | 0.0359 | 2.062 | 0.1326 | 0.2349 | 0.2422 | 0.0463 | 0.1503 | 0.1023 | -0.0157 | -0.0101 | -0.0044 | -0.0014 | -0.1388 | -0.0281 | -0.0631 | 0.0082 | -0.2565 | -0.1422,max 2.062,min -0.2565,avg 0.0841975609756,abs_avg 0.178304878049
86 changes: 86 additions & 0 deletions batch_tests/analysis/census_001/small_food_feat_analysis.csv
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2 changes: 2 additions & 0 deletions batch_tests/batch_run_dcs/dc-adult-joint.txt
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adult_1 GL GLD 1031210839_adult_1_GLD_cov_alpha0dot01_topk_10_dc.txt 5 [7-8-9-10-11] 3 /fastdisk/ProfilerData/adult_1/GL/GLD/sparsity_0.01/decomposition

9 changes: 9 additions & 0 deletions batch_tests/batch_run_dcs/dc-census-001.txt
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census_001 GL GL 1118134717_census_001_GL_cov_alpha0dot01_topk_3_s400_k8_b001_t0.3_single_topdown_dc.txt 14 [1-2-3-4-6-7-8-9-10-11-12-14-27-28] 3 /fastdisk/ProfilerData/census_001/GL/GL/sparsity_0.01/decomposition/ri/single_topdown
census_001 GL GL 1118134717_census_001_GL_cov_alpha0dot01_topk_5_s400_k8_b001_t0.3_single_topdown_dc.txt 17 [3-6-7-9-10-11-12-15-16-19-20-27-28-29-30-31-32] 3 /fastdisk/ProfilerData/census_001/GL/GL/sparsity_0.01/decomposition/ri/single_topdown
census_001 GL GL 1118134717_census_001_GL_cov_alpha0dot01_topk_5_s400_k8_b001_t0.3_multiple_topdown_dc.txt 17 [3-4-5-6-7-9-10-15-16-17-18-20-21-22-23-24-25] 5 /fastdisk/ProfilerData/census_001/GL/GL/sparsity_0.01/decomposition/ri/multiple_topdown
census_001 GL GLD 1118134840_census_001_GLD_cov_alpha0dot01_topk_3_dc.txt 21 [1-3-7-11-12-17-27-49-57-58-59-60-61-62-63-64-65-66-67-68-69] 4 /fastdisk/ProfilerData/census_001/GL/GLD/sparsity_0.01/decomposition
census_001 GL GLD 1118134840_census_001_GLD_cov_alpha0dot01_topk_3_s400_k8_b001_t0.5_single_topdown_dc.txt 17 [6-7-10-11-12-27-29-49-59-60-62-66-69-70-71-72-73] 3 /fastdisk/ProfilerData/census_001/GL/GLD/sparsity_0.01/decomposition/ri/single_topdown
census_001 GL GLD 1118134840_census_001_GLD_cov_alpha0dot01_topk_3_s400_k8_b001_t0.5_multiple_topdown_dc.txt 15 [6-7-11-12-17-27-49-58-60-62-63-65-68-69-70] 4 /fastdisk/ProfilerData/census_001/GL/GLD/sparsity_0.01/decomposition/ri/multiple_topdown
DONE
census_001 GL GL 1118134717_census_001_GL_cov_alpha0dot01_topk_3_dc.txt 14 [1-2-3-4-5-6-7-8-9-10-11-12-13-14] 3 /fastdisk/ProfilerData/census_001/GL/GL/sparsity_0.01/decomposition
census_001 GL GL 1118134717_census_001_GL_cov_alpha0dot01_topk_5_dc.txt 18 [3-5-6-7-9-10-15-16-17-18-19-20-21-22-23-24-25-26] 5 /fastdisk/ProfilerData/census_001/GL/GL/sparsity_0.01/decomposition
1 change: 1 addition & 0 deletions batch_tests/batch_run_dcs/dc-food-small.txt
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food GL GLD 1113194633_food_GLD_cov_alpha0dot01_topk_3_s400_k8_b001_multiple_topdown_knn10_hamming_dc.txt 12 [1-3-4-5-7-14-15-18-19-22-30-33] 2 /fastdisk/ProfilerData/food/GL/GLD/sparsity_0.01/decomposition/knn/multiple_topdown
7 changes: 7 additions & 0 deletions batch_tests/batch_run_dcs/dc-food.txt
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food GL GLD 1113194633_food_GLD_cov_alpha0dot01_topk_3_s400_k8_b001_multiple_topdown_knn10_hamming_dc.txt 12 [1-3-4-5-7-14-15-18-19-22-30-33] 2 /fastdisk/ProfilerData/food/GL/GLD/sparsity_0.01/decomposition/knn/multiple_topdown
food attention joint 1113205630_food_preFalse_joint_osc0dot01_topk_3_dc.txt 6 [34-42-43-44-45-46] 3 /fastdisk/ProfilerData/food/attention/joint/decomposition
food attention joint 1113224153_food_preFalse_joint_topk_3_dc.txt 6 [29-42-44-46-47-48] 4 /fastdisk/ProfilerData/food/attention/joint/decomposition
food attention joint 1113213158_food_preFalse_joint_osc0dot02_topk_3_dc.txt 7 [42-45-49-50-51-52-53] 4 /fastdisk/ProfilerData/food/attention/joint/decomposition
food attention joint 1113213158_food_preFalse_joint_osc0dot02_topk_5_dc.txt 8 [37-42-50-53-54-55-56-57] 4 /fastdisk/ProfilerData/food/attention/joint/decomposition
food attention joint 1113220644_food_preFalse_joint_osc0dot0_topk_3_dc.txt 6 [39-40-42-43-63-64] 4 /fastdisk/ProfilerData/food/attention/joint/decomposition
food GL GL 1114094842_food_GL_cov_alpha0dot01_topk_10_dc.txt 4 [1-2-3-4] 2 /fastdisk/ProfilerData/food/GL/GL/sparsity_0.01/decomposition
18 changes: 18 additions & 0 deletions batch_tests/batch_run_dcs/dc-physician.txt
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physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_5_dc.txt 13 [1-2-3-4-5-6-7-8-9-10-11-12-13] 7 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_3_dc.txt 9 [3-8-14-15-16-17-18-19-20] 3 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_3_s400_k8_b001_multiple_bottomup_knn10_euclidean_dc.txt 5 [14-15-17-18-20] 3 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/multiple_bottomup
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_5_s400_k8_b001_multiple_bottomup_knn10_hamming_dc.txt 22 [1-2-3-8-12-13-17-20-21-22-23-24-25-26-27-28-29-30-31-32-33-34] 4 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/multiple_bottomup
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_3_s400_k8_b001_multiple_bottomup_knn10_hamming_dc.txt 12 [3-8-14-15-16-17-18-19-20-30-31-35] 3 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/multiple_bottomup
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_5_s400_k8_b001_multiple_bottomup_knn10_euclidean_dc.txt 16 [1-2-13-36-37-38-39-40-41-42-43-44-45-46-47-48] 5 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/multiple_bottomup
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_5_s400_k8_b001_single_bottomup_knn10_euclidean_dc.txt 11 [1-13-20-30-36-49-50-51-52-53-54] 4 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/single_bottomup
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_3_s400_k8_b001_single_bottomup_knn10_euclidean_dc.txt 5 [14-18-20-30-35] 2 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/single_bottomup
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_3_s400_k8_b001_single_bottomup_knn10_hamming_dc.txt 9 [3-14-15-16-18-20-55-56-57] 2 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/single_bottomup
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_5_s400_k8_b001_single_bottomup_knn10_hamming_dc.txt 13 [1-3-13-16-24-27-32-36-55-56-57-58-59] 3 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/single_bottomup
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_3_s400_k8_b001_multiple_topdown_knn10_euclidean_dc.txt 4 [14-17-18-20] 3 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/multiple_topdown
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_5_s400_k8_b001_multiple_topdown_knn10_hamming_dc.txt 16 [1-2-3-12-13-30-40-60-61-62-63-64-65-66-67-68] 6 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/multiple_topdown
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_3_s400_k8_b001_multiple_topdown_knn10_hamming_dc.txt 9 [3-14-15-16-18-20-30-31-57] 2 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/multiple_topdown
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_5_s400_k8_b001_multiple_topdown_knn10_euclidean_dc.txt 4 [1-2-9-13] 7 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/multiple_topdown
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_5_s400_k8_b001_single_topdown_knn10_hamming_dc.txt 13 [1-3-13-14-27-28-36-55-56-58-59-69-70] 2 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/single_topdown
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_5_s400_k8_b001_single_topdown_knn10_euclidean_dc.txt 10 [1-13-20-21-28-30-50-51-71-72] 2 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/knn/single_topdown
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_5_s400_k8_b001_t0.5_multiple_topdown_dc.txt 51 [1-2-3-13-38-45-46-47-49-55-56-57-59-69-70-73-74-75-76-77-78-79-80-81-82-83-84-85-86-87-88-89-90-91-92-93-94-95-96-97-98-99-100-101-102-103-104-105-106-107-108] 3 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/ri/multiple_topdown
physician_s005 GL GLD 1113154358_physician_s005_GLD_cov_alpha0dot01_topk_5_s400_k8_b001_t0.5_single_topdown_dc.txt 13 [1-3-13-14-15-28-31-36-55-58-59-101-109] 2 /fastdisk/ProfilerData/physician_s005/GL/GLD/sparsity_0.01/decomposition/ri/single_topdown
12 changes: 12 additions & 0 deletions batch_tests/batch_run_scripts/run-census-001.sh
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source ../set_env.sh
c=3
while IFS=' ' read -r data model sub name count dcs max_dim location
do
./../create_db.sh ${data}_${c}
echo $location
echo $name
python hc.py -msg GL -notes $c -dataname $data -dcpath $location -dc $name -k 0.1 -w 0.01 -omit init lang occur --wlog &> ../log/census_001/runtime-${c}.log
c=$((c+1))
python send_email.py census

done < ../batch_scripts/dc-census-001.txt
17 changes: 17 additions & 0 deletions batch_tests/batch_run_scripts/run-small-adult.sh
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source ../set_env.sh
c=1
while IFS=' ' read -r data model sub name count dcs max_dim location
do

echo $location
echo $name
for feat in init lang initsim occurattr constraint initattr freq
do
./../create_db.sh small_adult_1_s${c}
python hc.py -notes s${c} -dataname small_adult_1 -dcpath $location -dc $name -k 0.1 -w 0.01 -omit $feat occur --wlog &> ../log/small_adult/omit-${feat}.log
echo $c
c=$((c+1))
done
python send_email.py hc2
break
done < ../batch_run_dcs/dc-adult-joint.txt
17 changes: 17 additions & 0 deletions batch_tests/batch_run_scripts/run-small-census.sh
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source ../set_env.sh
c=1
while IFS=' ' read -r data model sub name count dcs max_dim location
do

echo $location
echo $name
for feat in init lang initsim occurattr constraint initattr freq
do
./../create_db.sh small_census_01_v${c}
python hc.py -notes v${c} -dataname small_census_01 -dcpath $location -dc $name -k 0.1 -w 0.01 -omit $feat occur --wlog &> ../log/small_census/omit-${feat}.log
echo $c
c=$((c+1))
done
python send_email.py hc2
break
done < ../batch_run_dcs/dc-census-001.txt
15 changes: 15 additions & 0 deletions batch_tests/batch_run_scripts/run-small-food.sh
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source ../set_env.sh
c=1
while IFS=' ' read -r data model sub name count dcs max_dim location
do
echo $location
echo $name
for feat in init lang initsim occurattr constraint initattr freq
do
./../create_db.sh food_small_v${c}
python hc.py -msg validation -notes v${c} -dataname food_small -dcpath $location -dc $name -k 0.7 -w 0.01 -omit occur $feat --wlog &> ../log/small_food/omit-${feat}.log
echo $c
c=$((c+1))
done
python send_email.py small_food
done < ../batch_run_dcs/dc-food-small.txt
13 changes: 13 additions & 0 deletions batch_tests/batch_run_scripts/send_email.py
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import smtplib
import sys

password = 'theowantsitsoon!'
msg = sys.argv[1]

smtpObj = smtplib.SMTP('smtp.gmail.com',587)
smtpObj.ehlo()
smtpObj.starttls()
smtpObj.login('[email protected]',password)
smtpObj.sendmail('[email protected]','[email protected]',"Subject: Holoclean1 [{}] is done!".format(msg))
smtpObj.quit()
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