2025-08-29 16:11:02,059 - INFO - Starting maelstrom
2025-08-29 16:11:02,073 - INFO - Input is not mean-centered, setting the mean of all rows to 0.
2025-08-29 16:11:02,073 - INFO - Use --nocenter if you know what you're doing and want to change this behavior.
2025-08-29 16:11:02,073 - INFO - Note that if you use count data (ChIP-seq, ATAC-seq) we recommend to first transform your data, for instance using log2(), and to normalize between samples. To create a table suitable for maelstrom you can use the coverage_table script included with GimmeMotifs.
2025-08-29 16:11:02,140 - INFO - motif scanning (counts)
2025-08-29 16:11:02,140 - INFO - reading table
2025-08-29 16:11:04,596 - INFO - setting threshold
2025-08-29 16:11:13,145 - INFO - creating count table
2025-08-29 16:12:06,316 - INFO - done
2025-08-29 16:12:06,317 - INFO - creating dataframe
2025-08-29 16:12:17,830 - INFO - motif scanning (scores)
2025-08-29 16:12:17,830 - INFO - reading table
2025-08-29 16:12:24,660 - INFO - creating score table (z-score, GC%)
2025-08-29 16:15:02,584 - INFO - done
2025-08-29 16:15:02,585 - INFO - creating dataframe
2025-08-29 16:17:21,958 - WARNING - Skipping xgboost. Reason: Optional dependency xgboost is required.
2025-08-29 16:17:25,462 - INFO - Fitting BayesianRidge

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2025-08-29 16:17:46,926 - INFO - Done
2025-08-29 16:17:50,541 - INFO - Fitting MultiTaskLasso
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 84550.82464650273, tolerance: 21473.875699496566
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 36380.42214637995, tolerance: 21217.314592965653
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 81269.88561981916, tolerance: 21229.273666848487
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 60155.99950140715, tolerance: 20859.70837740763
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 162549.92261436582, tolerance: 20885.709699505893
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 212567.01072975993, tolerance: 21473.875699496566
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 171321.56688657403, tolerance: 21217.314592965653
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 89057.00532507896, tolerance: 21229.273666848487
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 156775.8748215139, tolerance: 20859.70837740763
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 258800.22679296136, tolerance: 20885.709699505893
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 353778.4622813463, tolerance: 21473.875699496566
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 613296.819401145, tolerance: 21217.314592965653
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 87107.92865747213, tolerance: 21229.273666848487
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 126338.54698187113, tolerance: 20859.70837740763
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 288171.4513313174, tolerance: 20885.709699505893
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 643318.6780402064, tolerance: 21473.875699496566
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 501461.13043513894, tolerance: 21217.314592965653
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 156360.04530400038, tolerance: 21229.273666848487
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 358323.1640780121, tolerance: 20885.709699505893
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 239288.02571868896, tolerance: 20859.70837740763
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 483766.44821196795, tolerance: 21473.875699496566
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 1316546.861122638, tolerance: 21217.314592965653
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 422856.7472805083, tolerance: 21229.273666848487
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 309288.7444945276, tolerance: 20859.70837740763
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 966915.7355487347, tolerance: 20885.709699505893
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 876145.338971898, tolerance: 21473.875699496566
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 1061933.3352027982, tolerance: 21217.314592965653
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 684487.32925798, tolerance: 21229.273666848487
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 855661.6475781947, tolerance: 20885.709699505893
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 804466.6850031614, tolerance: 20859.70837740763
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 262162.9487221539, tolerance: 21473.875699496566
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 1581933.0589187741, tolerance: 21217.314592965653
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 273777.64292272925, tolerance: 21229.273666848487
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 1083906.488597691, tolerance: 20885.709699505893
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 343401.1780858785, tolerance: 20859.70837740763
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 349569.61871770024, tolerance: 21473.875699496566
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 565452.0251906663, tolerance: 21217.314592965653
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 676852.6436498761, tolerance: 21229.273666848487
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: ConvergenceWarning: Objective did not converge. You might want to increase the number of iterations. Duality gap: 686134.775490284, tolerance: 20859.70837740763
  _warn(*args, **kwargs)
2025-08-29 19:05:15,624 - INFO - Done
2025-08-29 19:05:19,260 - INFO - Fitting SVR
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: FutureWarning: The default value of `dual` will change from `True` to `'auto'` in 1.5. Set the value of `dual` explicitly to suppress the warning.
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: FutureWarning: The default value of `dual` will change from `True` to `'auto'` in 1.5. Set the value of `dual` explicitly to suppress the warning.
  _warn(*args, **kwargs)
/home/siebrenf/miniconda3/envs/gimme2/lib/python3.10/site-packages/gimmemotifs/__init__.py:30: FutureWarning: The default value of `dual` will change from `True` to `'auto'` in 1.5. Set the value of `dual` explicitly to suppress the warning.
  _warn(*args, **kwargs)
2025-08-29 19:07:34,608 - INFO - Done
2025-08-29 19:07:34,628 - INFO - Rank aggregation
2025-08-29 19:07:35,688 - INFO - Correlation
2025-08-29 19:07:42,950 - INFO - html report
2025-08-29 19:19:39,230 - INFO - out_diy/gimme.maelstrom.report.html