INFO  [2024-03-09 21:41:11] Initializing ALASCA (v1.0.15, 2024-02-07)
WARN  [2024-03-09 21:41:11] Guessing effects: `fold+fold:treatment+treatment`
INFO  [2024-03-09 21:41:11] Will use linear mixed models!
INFO  [2024-03-09 21:41:11] Will use Rfast!
WARN  [2024-03-09 21:41:11] Converting IDs to integer values
WARN  [2024-03-09 21:41:11] The `fold` column is used for stratification
WARN  [2024-03-09 21:41:11] Converting `character` columns to factors
INFO  [2024-03-09 21:41:11] Scaling data with sdall ...
INFO  [2024-03-09 21:41:12] Calculating LMM coefficients
INFO  [2024-03-09 21:41:12] Reducing the number of dimensions with PCA
INFO  [2024-03-09 21:41:13] Keeping 46 components from initial PCA, explaining 95.24 % of variation. The limit can be changed with `reduce_dimensions.limit`
INFO  [2024-03-09 21:41:13] -> Finished the reduction of dimensions!
WARN  [2024-03-09 21:41:13] Keeping 20 of 46 components. Change `max_PC` if necessary.
INFO  [2024-03-09 21:41:14] Starting validation: bootstrap
INFO  [2024-03-09 21:41:14] - Run 1 of 100
INFO  [2024-03-09 21:41:18] --- Used 4.38 seconds. Est. time remaining: 435.7 seconds
INFO  [2024-03-09 21:41:18] - Run 2 of 100
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INFO  [2024-03-09 21:41:53] - Run 10 of 100
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INFO  [2024-03-09 21:41:57] - Run 11 of 100
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INFO  [2024-03-09 21:42:01] - Run 12 of 100
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INFO  [2024-03-09 21:42:05] - Run 13 of 100
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INFO  [2024-03-09 21:42:09] - Run 14 of 100
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INFO  [2024-03-09 21:42:14] - Run 15 of 100
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INFO  [2024-03-09 21:42:18] - Run 16 of 100
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INFO  [2024-03-09 21:42:22] - Run 17 of 100
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INFO  [2024-03-09 21:42:26] - Run 18 of 100
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INFO  [2024-03-09 21:42:31] - Run 19 of 100
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INFO  [2024-03-09 21:42:35] - Run 20 of 100
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INFO  [2024-03-09 21:42:47] - Run 23 of 100
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INFO  [2024-03-09 21:43:00] - Run 26 of 100
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INFO  [2024-03-09 21:43:05] - Run 27 of 100
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INFO  [2024-03-09 21:44:21] - Run 45 of 100
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INFO  [2024-03-09 21:44:25] - Run 46 of 100
INFO  [2024-03-09 21:44:29] --- Used 4.2 seconds. Est. time remaining: 229.39 seconds
INFO  [2024-03-09 21:44:29] - Run 47 of 100
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INFO  [2024-03-09 21:48:16] - Run 100 of 100
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INFO  [2024-03-09 21:48:20] Calculating percentiles for score and loading
INFO  [2024-03-09 21:48:43] ==== ALASCA has finished ====
INFO  [2024-03-09 21:48:43] To visualize the model, try `plot(<object>, effect = 1, component = 1, type = 'effect')`
INFO  [2024-03-09 21:48:43] Scree plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 1 and 2 and 3 and 4 and 5 and 6 and 7 and 8 and 9 and 10.
INFO  [2024-03-09 21:48:43] Effect plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 1.
WARN  [2024-03-09 21:48:43] Showing 20 of 11270 variables. Adjust the number with `n_limit`
INFO  [2024-03-09 21:48:44] Effect plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 2.
WARN  [2024-03-09 21:48:44] Showing 20 of 11270 variables. Adjust the number with `n_limit`
INFO  [2024-03-09 21:48:45] Effect plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 3.
WARN  [2024-03-09 21:48:45] Showing 20 of 11270 variables. Adjust the number with `n_limit`
INFO  [2024-03-09 21:48:45] Effect plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 4.
WARN  [2024-03-09 21:48:45] Showing 20 of 11270 variables. Adjust the number with `n_limit`
INFO  [2024-03-09 21:48:46] Effect plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 5.
WARN  [2024-03-09 21:48:46] Showing 20 of 11270 variables. Adjust the number with `n_limit`
INFO  [2024-03-09 21:48:47] Effect plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 6.
WARN  [2024-03-09 21:48:47] Showing 20 of 11270 variables. Adjust the number with `n_limit`
INFO  [2024-03-09 21:48:48] Prediction plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 1.
INFO  [2024-03-09 21:48:48] Selecting the 10 variables with highest/lowest loading on `fold+fold:treatment+treatment` (PC1). Use `variable` to specify variables to plot
INFO  [2024-03-09 21:48:50] Prediction plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 2.
INFO  [2024-03-09 21:48:50] Selecting the 10 variables with highest/lowest loading on `fold+fold:treatment+treatment` (PC2). Use `variable` to specify variables to plot
INFO  [2024-03-09 21:48:51] Prediction plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 3.
INFO  [2024-03-09 21:48:51] Selecting the 10 variables with highest/lowest loading on `fold+fold:treatment+treatment` (PC3). Use `variable` to specify variables to plot
INFO  [2024-03-09 21:48:53] Prediction plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 4.
INFO  [2024-03-09 21:48:53] Selecting the 10 variables with highest/lowest loading on `fold+fold:treatment+treatment` (PC4). Use `variable` to specify variables to plot
INFO  [2024-03-09 21:48:54] Prediction plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 5.
INFO  [2024-03-09 21:48:54] Selecting the 10 variables with highest/lowest loading on `fold+fold:treatment+treatment` (PC5). Use `variable` to specify variables to plot
INFO  [2024-03-09 21:48:56] Prediction plot. Selected effect (nr 1): `fold+fold:treatment+treatment`. Component: 6.
INFO  [2024-03-09 21:48:56] Selecting the 10 variables with highest/lowest loading on `fold+fold:treatment+treatment` (PC6). Use `variable` to specify variables to plot
INFO  [2024-03-09 21:48:58] Loadings for effect number 1 and principal component(s) 5
INFO  [2024-03-09 21:48:58] Loadings for effect number 1 and principal component(s) 6
INFO  [2024-03-09 21:48:58] Loadings for effect number 1 and principal component(s) 1
INFO  [2024-03-09 21:48:58] Loadings for effect number 1 and principal component(s) 2
INFO  [2024-03-09 21:48:58] Loadings for effect number 1 and principal component(s) 3
INFO  [2024-03-09 21:48:58] Loadings for effect number 1 and principal component(s) 4