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Genomic-Selection-for-Drought-Tolerance-Using-Genome-Wide-SNPs-in-Casava/
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To perform the analyses, we will need the following packages:
In the GBLUP, we will use the k matrix (additive) instead of the SNPs matrix. Thus, we will obtain the GEBV directly. Note that we will need to build the G matrix again, since some genotypes were dropped after our filtering.
For this purpose, we will use the sommer package [@Covarrubias-Pazaran_2014]. In the code below, y is for the vector with the means, K is for a covariance matrix for the random effects, which will be and identity matrix by default; and X is a design matrix for the fixed effects, which will be a vector of ones (1) by default. Note that we are returning to the “1, 0, -1” codification in the SNPs matrix. This is a requirement of the sommer package.
To prove that the prediction is accurate, we should perform a cross-validation (CV) scheme. For this purpose, we divide the data into a training set and a validation set.
First we separate the data into k folds. Then, we attribute NA for one fold and try to predict the data from this fold based on the others. When selecting the number of folds, one must prioritize the balance between the number of observations in each fold.
In addition, this process should be repeated for further validation. The step-by-step below will guide the CV in the data we are analysing.
Since we defined 5 folds, our data will be divided into 5 parts with 83 observations each.
The order is decreasing or increasing (numeric or alphabetical) regarding the name of the genotypes.
pheno <- pheno[order(pheno$ID_Clone, decreasing = F),]
geno <- geno[order(row.names(geno)),]
all(rownames(geno) == pheno$ID_Clone)[1] TRUEThis will be useful to assign each observation for a fold, which will be the next step.
In this step, we will assign each observation to a fold. Bear in mind that for each repetition, the folds will comprise different observations. The purpose of the repetition is to make sure of the randomness of the assignment step.
In this step, we will use the cvTools package [@cvTools]
For better performance, we included this step in the loop of the next step.
The next step is the very CV. Here, we will define the linear predictor and the lists that will be useful in the loop. The first list, here called results_cv_G_BLUP and, contains the results for each fold assignation that we built in the previous step. The second GEBVS_G_BLUP contains the GEBVs.
Then, we will construct the loop. Each iteration will assign NA for a different fold, and we will use the other folds to predict the missing values. Note that the folds vary for each repetition and trait.
Set up parallel processing. Define and run multiple models to get the GEBVs ATTENTION: This process is time-consuming.
# Planejar o processamento em várias sessões para paralelização
plan(multisession)
# Iniciar uma lista para armazenar os resultados
results_list <-
future_map(traits, .options = furrr_options(seed = 100), function(j) {
# Pré-processamento dos dados
pheno2 <- pheno %>%
select(ID_Clone, all_of(j)) %>%
na.omit() %>%
ungroup() %>%
filter(ID_Clone %in% rownames(K)) %>%
mutate(ID = factor(1:nrow(.))) %>%
droplevels()
# Filtrar as linhas de Z com base em pheno2$ID_Clone
K1 <-
K[rownames(K) %in% pheno2$ID_Clone, rownames(K) %in% pheno2$ID_Clone]
#Semente para reprodução
set.seed(100)
# Listas das folds
fold.list <- lapply(1:nrept, function(a) {
folds <- cvFolds(nlevels(pheno2$ID),
type = "random",
K = nfolds)
split(folds$subsets, f = folds$which)
})
# Usar future_map_dfr para criar dobras cruzadas em paralelo
future_map_dfr(1:length(fold.list), function(z) {
for (i in 1:nfolds) {
# Conjunto de treinamento
train_data <- pheno2
# Conjunto de validação
train_data[train_data$ID %in% fold.list[[z]][[i]], j] <- NA
# Fitting model
fixed <- formula(paste(j, " ~ 1"))
GBLUP <-
sommer::mmer(
fixed,
random = ~ sommer::vsr(ID_Clone, Gu = K1),
data = train_data,
rcov = ~ units
)
# Calcular herdabilidade
narrow_sense <- sommer::vpredict(GBLUP, h2 ~ V1 / (V1 + V2)) # herdabilidade em sentido estrito
# GETGV
Pred <-
data.frame(
Yhat = GBLUP$U$`u:ID_Clone`[[j]],
ID = train_data$ID,
ID_Clone = train_data$ID_Clone
) %>%
filter(ID %in% fold.list[[z]][[i]])
result1 <-
tibble(
GEBV = Pred$Yhat,
ID = Pred$ID,
ID_Clone = Pred$ID_Clone,
Trait = j,
rep = z,
fold = i
)
# Resultados da previsão
if (i == 1) {
result <- result1
} else {
result <- rbind(result, result1)
}
}
#Ordenando os resultados de acordo com o ID
result <- result[order(result$ID, decreasing = F),]
# Resultados da validação cruzada
result_cv <- tibble(
Trait = j,
rep = z,
Log = all(result$ID == pheno2$ID),
Ac = round(cor(result$GEBV, pheno2[[j]], use = "na.or.complete"), 3),
MSPE = round(mean((
result$GEBV - pheno2[[j]]
) ^ 2, na.rm = TRUE), 3),
result = list(result),
narrow_sense = narrow_sense$Estimate,
)
})
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10 -145.747 14:46:52 1 0
iteration LogLik wall cpu(sec) restrained
1 -146.414 14:46:52 0 0
2 -144.448 14:46:52 0 0
3 -143.905 14:46:53 1 0
4 -143.822 14:46:53 1 0
5 -143.818 14:46:53 1 0
6 -143.817 14:46:53 1 0
iteration LogLik wall cpu(sec) restrained
1 -156.769 14:45:49 0 0
2 -156.376 14:45:49 0 0
3 -156.124 14:45:50 1 0
4 -156.007 14:45:50 1 0
5 -155.974 14:45:50 1 0
6 -155.965 14:45:50 1 0
7 -155.962 14:45:50 1 0
8 -155.961 14:45:51 2 0
iteration LogLik wall cpu(sec) restrained
1 -145.247 14:45:51 0 0
2 -142.667 14:45:51 0 0
3 -142.072 14:45:51 0 0
4 -142.001 14:45:52 1 0
5 -141.999 14:45:52 1 0
6 -141.999 14:45:52 1 0
iteration LogLik wall cpu(sec) restrained
1 -153.029 14:45:53 1 0
2 -152.149 14:45:53 1 0
3 -151.645 14:45:53 1 0
4 -151.431 14:45:53 1 0
5 -151.374 14:45:53 1 0
6 -151.358 14:45:54 2 0
7 -151.354 14:45:54 2 0
8 -151.353 14:45:54 2 0
9 -151.352 14:45:54 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.159 14:45:55 1 0
2 -153.099 14:45:55 1 0
3 -152.489 14:45:55 1 0
4 -152.242 14:45:55 1 0
5 -152.186 14:45:56 2 0
6 -152.173 14:45:56 2 0
7 -152.171 14:45:56 2 0
8 -152.17 14:45:56 2 0
iteration LogLik wall cpu(sec) restrained
1 -151.004 14:45:57 0 0
2 -148.687 14:45:57 0 0
3 -147.095 14:45:57 0 0
4 -146.215 14:45:57 0 0
5 -145.912 14:45:58 1 0
6 -145.815 14:45:58 1 0
7 -145.786 14:45:58 1 0
8 -145.777 14:45:58 1 0
9 -145.774 14:45:58 1 0
10 -145.774 14:45:59 2 0
iteration LogLik wall cpu(sec) restrained
1 -150.194 14:45:59 0 0
2 -147.397 14:45:59 0 0
3 -145.706 14:46:0 1 0
4 -145.005 14:46:0 1 0
5 -144.857 14:46:0 1 0
6 -144.828 14:46:0 1 0
7 -144.823 14:46:0 1 0
8 -144.822 14:46:1 2 0
iteration LogLik wall cpu(sec) restrained
1 -149.391 14:46:1 0 0
2 -147.799 14:46:1 0 0
3 -147.188 14:46:1 0 0
4 -147.034 14:46:2 1 0
5 -147.016 14:46:2 1 0
6 -147.013 14:46:2 1 0
7 -147.013 14:46:2 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.332 14:46:3 0 0
2 -149.392 14:46:3 0 0
3 -148.263 14:46:3 0 0
4 -147.8 14:46:4 1 0
5 -147.698 14:46:4 1 0
6 -147.677 14:46:4 1 0
7 -147.673 14:46:4 1 0
8 -147.672 14:46:4 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.246 14:46:5 0 0
2 -153.599 14:46:5 0 0
3 -153.211 14:46:5 0 0
4 -153.029 14:46:5 0 0
5 -152.974 14:46:6 1 0
6 -152.956 14:46:6 1 0
7 -152.951 14:46:6 1 0
8 -152.949 14:46:6 1 0
9 -152.948 14:46:6 1 0
iteration LogLik wall cpu(sec) restrained
1 -155 14:46:7 0 0
2 -154.346 14:46:7 0 0
3 -153.977 14:46:7 0 0
4 -153.824 14:46:8 1 0
5 -153.786 14:46:8 1 0
6 -153.775 14:46:8 1 0
7 -153.772 14:46:8 1 0
8 -153.771 14:46:8 1 0
iteration LogLik wall cpu(sec) restrained
1 -149.432 14:46:9 0 0
2 -146.618 14:46:9 0 0
3 -145.088 14:46:9 0 0
4 -144.56 14:46:9 0 0
5 -144.477 14:46:10 1 0
6 -144.465 14:46:10 1 0
7 -144.464 14:46:10 1 0
8 -144.464 14:46:10 1 0
iteration LogLik wall cpu(sec) restrained
1 -150.639 14:46:11 0 0
2 -149.656 14:46:11 0 0
3 -149.234 14:46:11 0 0
4 -149.104 14:46:11 0 0
5 -149.082 14:46:12 1 0
6 -149.077 14:46:12 1 0
7 -149.077 14:46:12 1 0
iteration LogLik wall cpu(sec) restrained
1 -155.133 14:46:13 1 0
2 -154.008 14:46:13 1 0
3 -153.246 14:46:13 1 0
4 -152.879 14:46:13 1 0
5 -152.778 14:46:14 2 0
6 -152.752 14:46:14 2 0
7 -152.745 14:46:14 2 0
8 -152.743 14:46:14 2 0
9 -152.743 14:46:14 2 0
iteration LogLik wall cpu(sec) restrained
1 -151.812 14:46:15 0 0
2 -150.687 14:46:15 0 0
3 -150.174 14:46:15 0 0
4 -150.005 14:46:16 1 0
5 -149.972 14:46:16 1 0
6 -149.966 14:46:16 1 0
7 -149.964 14:46:16 1 0
8 -149.964 14:46:16 1 0
iteration LogLik wall cpu(sec) restrained
1 -152.081 14:46:17 0 0
2 -150.193 14:46:17 0 0
3 -149.153 14:46:17 0 0
4 -148.782 14:46:18 1 0
5 -148.717 14:46:18 1 0
6 -148.706 14:46:18 1 0
7 -148.705 14:46:18 1 0
8 -148.704 14:46:18 1 0
iteration LogLik wall cpu(sec) restrained
1 -147.074 14:46:19 0 0
2 -145.65 14:46:19 0 0
3 -145.257 14:46:19 0 0
4 -145.187 14:46:20 1 0
5 -145.181 14:46:20 1 0
6 -145.181 14:46:20 1 0
iteration LogLik wall cpu(sec) restrained
1 -155.034 14:46:21 1 0
2 -153.992 14:46:21 1 0
3 -153.3 14:46:21 1 0
4 -152.976 14:46:21 1 0
5 -152.889 14:46:21 1 0
6 -152.867 14:46:22 2 0
7 -152.862 14:46:22 2 0
8 -152.861 14:46:22 2 0
9 -152.86 14:46:22 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.226 14:46:23 1 0
2 -150.448 14:46:23 1 0
3 -149.248 14:46:23 1 0
4 -148.625 14:46:23 1 0
5 -148.43 14:46:23 1 0
6 -148.373 14:46:24 2 0
7 -148.357 14:46:24 2 0
8 -148.353 14:46:24 2 0
9 -148.352 14:46:24 2 0
10 -148.351 14:46:24 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.356 14:46:25 0 0
2 -150.284 14:46:25 0 0
3 -148.934 14:46:25 0 0
4 -148.299 14:46:25 0 0
5 -148.136 14:46:26 1 0
6 -148.098 14:46:26 1 0
7 -148.09 14:46:26 1 0
8 -148.088 14:46:26 1 0
9 -148.087 14:46:27 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.818 14:46:27 0 0
2 -151.797 14:46:27 0 0
3 -151.277 14:46:27 0 0
4 -151.098 14:46:28 1 0
5 -151.065 14:46:28 1 0
6 -151.059 14:46:28 1 0
7 -151.058 14:46:28 1 0
8 -151.058 14:46:28 1 0
iteration LogLik wall cpu(sec) restrained
1 -150.634 14:46:29 0 0
2 -149.037 14:46:29 0 0
3 -148.222 14:46:29 0 0
4 -147.93 14:46:29 0 0
5 -147.872 14:46:29 0 0
6 -147.86 14:46:30 1 0
7 -147.858 14:46:30 1 0
8 -147.857 14:46:30 1 0
iteration LogLik wall cpu(sec) restrained
1 -148.521 14:46:30 0 0
2 -145.716 14:46:30 0 0
3 -144.112 14:46:31 1 0
4 -143.443 14:46:31 1 0
5 -143.294 14:46:31 1 0
6 -143.263 14:46:31 1 0
7 -143.257 14:46:31 1 0
8 -143.256 14:46:31 1 0
9 -143.256 14:46:31 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.888 14:46:32 0 0
2 -150.406 14:46:32 0 0
3 -149.63 14:46:32 0 0
4 -149.352 14:46:32 0 0
5 -149.299 14:46:32 0 0
6 -149.289 14:46:33 1 0
7 -149.287 14:46:33 1 0
8 -149.287 14:46:33 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.959 14:46:33 0 0
2 -153.676 14:46:33 0 0
3 -152.805 14:46:33 0 0
4 -152.388 14:46:34 1 0
5 -152.276 14:46:34 1 0
6 -152.248 14:46:34 1 0
7 -152.241 14:46:34 1 0
8 -152.239 14:46:34 1 0
9 -152.239 14:46:34 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.126 14:46:35 1 0
2 -153.741 14:46:35 1 0
3 -153.599 14:46:35 1 0
4 -153.567 14:46:35 1 0
5 -153.564 14:46:35 1 0
6 -153.564 14:46:35 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.023 14:45:49 0 0
2 -117.421 14:45:49 0 0
3 -117.15 14:45:50 1 0
4 -117.09 14:45:50 1 0
5 -117.085 14:45:50 1 0
6 -117.084 14:45:50 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.583 14:45:50 0 0
2 -118.265 14:45:50 0 0
3 -118.112 14:45:50 0 0
4 -118.07 14:45:50 0 0
5 -118.065 14:45:50 0 0
6 -118.064 14:45:51 1 0
iteration LogLik wall cpu(sec) restrained
1 -115.375 14:45:51 0 0
2 -114.298 14:45:51 0 0
3 -113.823 14:45:51 0 0
4 -113.697 14:45:51 0 0
5 -113.683 14:45:51 0 0
6 -113.681 14:45:51 0 0
7 -113.681 14:45:51 0 0
iteration LogLik wall cpu(sec) restrained
1 -118.818 14:45:52 0 0
2 -118.676 14:45:52 0 0
3 -118.624 14:45:52 0 0
4 -118.615 14:45:52 0 0
5 -118.615 14:45:52 0 0
iteration LogLik wall cpu(sec) restrained
1 -117.749 14:45:52 0 0
2 -116.775 14:45:52 0 0
3 -116.067 14:45:52 0 0
4 -115.703 14:45:52 0 0
5 -115.594 14:45:52 0 0
6 -115.562 14:45:53 1 0
7 -115.553 14:45:53 1 0
8 -115.551 14:45:53 1 0
9 -115.55 14:45:53 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.317 14:45:53 0 0
2 -118.221 14:45:53 0 0
3 -118.19 14:45:53 0 0
4 -118.186 14:45:53 0 0
5 -118.186 14:45:53 0 0
iteration LogLik wall cpu(sec) restrained
1 -118.823 14:45:54 0 0
2 -118.533 14:45:54 0 0
3 -118.376 14:45:54 0 0
4 -118.326 14:45:54 0 0
5 -118.318 14:45:54 0 0
6 -118.317 14:45:54 0 0
7 -118.317 14:45:54 0 0
iteration LogLik wall cpu(sec) restrained
1 -118.172 14:45:54 0 0
2 -117.391 14:45:54 0 0
3 -116.872 14:45:55 1 0
4 -116.65 14:45:55 1 0
5 -116.6 14:45:55 1 0
6 -116.59 14:45:55 1 0
7 -116.588 14:45:55 1 0
8 -116.588 14:45:55 1 0
iteration LogLik wall cpu(sec) restrained
1 -115.886 14:45:55 0 0
2 -114.682 14:45:55 0 0
3 -114.157 14:45:55 0 0
4 -114.032 14:45:56 1 0
5 -114.02 14:45:56 1 0
6 -114.019 14:45:56 1 0
7 -114.019 14:45:56 1 0
iteration LogLik wall cpu(sec) restrained
1 -116.375 14:45:56 0 0
2 -115.359 14:45:56 0 0
3 -114.845 14:45:56 0 0
4 -114.666 14:45:56 0 0
5 -114.63 14:45:56 0 0
6 -114.622 14:45:56 0 0
7 -114.62 14:45:57 1 0
8 -114.62 14:45:57 1 0
iteration LogLik wall cpu(sec) restrained
1 -121.333 14:45:57 0 0
2 -121.332 14:45:57 0 0
3 -121.332 14:45:57 0 0
4 -121.331 14:45:57 0 0
iteration LogLik wall cpu(sec) restrained
1 -117.408 14:45:57 0 0
2 -116.332 14:45:57 0 0
3 -115.627 14:45:57 0 0
4 -115.322 14:45:58 1 0
5 -115.251 14:45:58 1 0
6 -115.235 14:45:58 1 0
7 -115.232 14:45:58 1 0
8 -115.231 14:45:58 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.205 14:45:58 0 0
2 -117.68 14:45:58 0 0
3 -117.384 14:45:58 0 0
4 -117.283 14:45:58 0 0
5 -117.267 14:45:58 0 0
6 -117.264 14:45:59 1 0
7 -117.263 14:45:59 1 0
iteration LogLik wall cpu(sec) restrained
1 -115.991 14:45:59 0 0
2 -115.365 14:45:59 0 0
3 -115.143 14:45:59 0 0
4 -115.102 14:45:59 0 0
5 -115.099 14:45:59 0 0
6 -115.099 14:45:59 0 0
iteration LogLik wall cpu(sec) restrained
1 -113.475 14:45:59 0 0
2 -110.714 14:46:0 1 0
3 -109.108 14:46:0 1 0
4 -108.453 14:46:0 1 0
5 -108.307 14:46:0 1 0
6 -108.276 14:46:0 1 0
7 -108.27 14:46:0 1 0
8 -108.268 14:46:0 1 0
9 -108.268 14:46:0 1 0
iteration LogLik wall cpu(sec) restrained
1 -117 14:46:0 0 0
2 -116.427 14:46:1 1 0
3 -116.23 14:46:1 1 0
4 -116.2 14:46:1 1 0
5 -116.198 14:46:1 1 0
6 -116.198 14:46:1 1 0
iteration LogLik wall cpu(sec) restrained
1 -117.059 14:46:1 0 0
2 -116.477 14:46:1 0 0
3 -116.187 14:46:1 0 0
4 -116.093 14:46:1 0 0
5 -116.077 14:46:1 0 0
6 -116.074 14:46:1 0 0
7 -116.074 14:46:2 1 0
iteration LogLik wall cpu(sec) restrained
1 -119.148 14:46:2 0 0
2 -118.812 14:46:2 0 0
3 -118.589 14:46:2 0 0
4 -118.493 14:46:2 0 0
5 -118.471 14:46:2 0 0
6 -118.466 14:46:2 0 0
7 -118.465 14:46:2 0 0
8 -118.465 14:46:3 1 0
iteration LogLik wall cpu(sec) restrained
1 -117.876 14:46:3 0 0
2 -117.226 14:46:3 0 0
3 -116.893 14:46:3 0 0
4 -116.795 14:46:3 0 0
5 -116.782 14:46:3 0 0
6 -116.78 14:46:3 0 0
7 -116.78 14:46:3 0 0
iteration LogLik wall cpu(sec) restrained
1 -116.741 14:46:3 0 0
2 -116.05 14:46:4 1 0
3 -115.789 14:46:4 1 0
4 -115.745 14:46:4 1 0
5 -115.743 14:46:4 1 0
6 -115.743 14:46:4 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.701 14:46:4 0 0
2 -118.41 14:46:4 0 0
3 -118.261 14:46:4 0 0
4 -118.217 14:46:4 0 0
5 -118.211 14:46:4 0 0
6 -118.21 14:46:5 1 0
iteration LogLik wall cpu(sec) restrained
1 -117.161 14:46:5 0 0
2 -116.605 14:46:5 0 0
3 -116.385 14:46:5 0 0
4 -116.34 14:46:5 0 0
5 -116.337 14:46:5 0 0
6 -116.337 14:46:5 0 0
iteration LogLik wall cpu(sec) restrained
1 -116.455 14:46:5 0 0
2 -114.97 14:46:5 0 0
3 -114.099 14:46:6 1 0
4 -113.795 14:46:6 1 0
5 -113.744 14:46:6 1 0
6 -113.737 14:46:6 1 0
7 -113.735 14:46:6 1 0
8 -113.735 14:46:6 1 0
iteration LogLik wall cpu(sec) restrained
1 -116.418 14:46:6 0 0
2 -115.127 14:46:6 0 0
3 -114.436 14:46:6 0 0
4 -114.217 14:46:6 0 0
5 -114.185 14:46:7 1 0
6 -114.181 14:46:7 1 0
7 -114.18 14:46:7 1 0
iteration LogLik wall cpu(sec) restrained
1 -119.078 14:46:7 0 0
2 -118.966 14:46:7 0 0
3 -118.915 14:46:7 0 0
4 -118.902 14:46:7 0 0
5 -118.9 14:46:7 0 0
6 -118.9 14:46:7 0 0
iteration LogLik wall cpu(sec) restrained
1 -112.335 14:46:8 0 0
2 -110.202 14:46:8 0 0
3 -109.033 14:46:8 0 0
4 -108.43 14:46:8 0 0
5 -108.208 14:46:8 0 0
6 -108.126 14:46:8 0 0
7 -108.096 14:46:8 0 0
8 -108.086 14:46:8 0 0
9 -108.082 14:46:8 0 0
10 -108.081 14:46:8 0 0
11 -108.081 14:46:8 0 0
iteration LogLik wall cpu(sec) restrained
1 -110.18 14:46:9 0 0
2 -107.274 14:46:9 0 0
3 -106.05 14:46:9 0 0
4 -105.617 14:46:9 0 0
5 -105.522 14:46:9 0 0
6 -105.501 14:46:9 0 0
7 -105.497 14:46:9 0 0
8 -105.495 14:46:9 0 0
9 -105.495 14:46:9 0 0
iteration LogLik wall cpu(sec) restrained
1 -113.088 14:46:10 0 0
2 -112.252 14:46:10 0 0
3 -112.035 14:46:10 0 0
4 -111.996 14:46:10 0 0
5 -111.993 14:46:10 0 0
6 -111.992 14:46:10 0 0
iteration LogLik wall cpu(sec) restrained
1 -110.219 14:46:10 0 0
2 -108.092 14:46:10 0 0
3 -107.571 14:46:10 0 0
4 -107.483 14:46:10 0 0
5 -107.477 14:46:11 1 0
6 -107.476 14:46:11 1 0
iteration LogLik wall cpu(sec) restrained
1 -112.234 14:46:11 0 0
2 -110.293 14:46:11 0 0
3 -109.551 14:46:11 0 0
4 -109.325 14:46:11 0 0
5 -109.281 14:46:11 0 0
6 -109.272 14:46:11 0 0
7 -109.27 14:46:11 0 0
8 -109.269 14:46:11 0 0
iteration LogLik wall cpu(sec) restrained
1 -111.618 14:46:12 0 0
2 -110.475 14:46:12 0 0
3 -110.125 14:46:12 0 0
4 -110.035 14:46:12 0 0
5 -110.02 14:46:12 0 0
6 -110.017 14:46:12 0 0
7 -110.016 14:46:12 0 0
iteration LogLik wall cpu(sec) restrained
1 -110.168 14:46:12 0 0
2 -106.967 14:46:13 1 0
3 -105.453 14:46:13 1 0
4 -104.809 14:46:13 1 0
5 -104.635 14:46:13 1 0
6 -104.589 14:46:13 1 0
7 -104.577 14:46:13 1 0
8 -104.574 14:46:13 1 0
9 -104.573 14:46:13 1 0
iteration LogLik wall cpu(sec) restrained
1 -112.459 14:46:13 0 0
2 -111.167 14:46:14 1 0
3 -110.829 14:46:14 1 0
4 -110.765 14:46:14 1 0
5 -110.758 14:46:14 1 0
6 -110.757 14:46:14 1 0
iteration LogLik wall cpu(sec) restrained
1 -111.626 14:46:14 0 0
2 -109.832 14:46:14 0 0
3 -109.166 14:46:14 0 0
4 -108.95 14:46:14 0 0
5 -108.903 14:46:15 1 0
6 -108.891 14:46:15 1 0
7 -108.888 14:46:15 1 0
8 -108.887 14:46:15 1 0
iteration LogLik wall cpu(sec) restrained
1 -112.755 14:46:15 0 0
2 -110.151 14:46:15 0 0
3 -108.773 14:46:15 0 0
4 -108.201 14:46:15 0 0
5 -108.059 14:46:15 0 0
6 -108.024 14:46:15 0 0
7 -108.016 14:46:16 1 0
8 -108.014 14:46:16 1 0
9 -108.014 14:46:16 1 0
iteration LogLik wall cpu(sec) restrained
1 -112.922 14:46:16 0 0
2 -111.225 14:46:16 0 0
3 -110.432 14:46:16 0 0
4 -110.119 14:46:16 0 0
5 -110.034 14:46:16 0 0
6 -110.009 14:46:16 0 0
7 -110.002 14:46:16 0 0
8 -110 14:46:17 1 0
9 -109.999 14:46:17 1 0
iteration LogLik wall cpu(sec) restrained
1 -111.331 14:46:17 0 0
2 -108.893 14:46:17 0 0
3 -107.773 14:46:17 0 0
4 -107.303 14:46:17 0 0
5 -107.161 14:46:17 0 0
6 -107.114 14:46:17 0 0
7 -107.098 14:46:17 0 0
8 -107.093 14:46:17 0 0
9 -107.091 14:46:18 1 0
10 -107.09 14:46:18 1 0
iteration LogLik wall cpu(sec) restrained
1 -111.906 14:46:18 0 0
2 -110.14 14:46:18 0 0
3 -109.5 14:46:18 0 0
4 -109.31 14:46:18 0 0
5 -109.274 14:46:18 0 0
6 -109.267 14:46:18 0 0
7 -109.265 14:46:18 0 0
8 -109.265 14:46:18 0 0
iteration LogLik wall cpu(sec) restrained
1 -111.195 14:46:19 1 0
2 -109.173 14:46:19 1 0
3 -108.551 14:46:19 1 0
4 -108.412 14:46:19 1 0
5 -108.395 14:46:19 1 0
6 -108.393 14:46:19 1 0
7 -108.393 14:46:19 1 0
iteration LogLik wall cpu(sec) restrained
1 -111.326 14:46:19 0 0
2 -109.724 14:46:19 0 0
3 -109.159 14:46:19 0 0
4 -108.98 14:46:20 1 0
5 -108.941 14:46:20 1 0
6 -108.931 14:46:20 1 0
7 -108.928 14:46:20 1 0
8 -108.928 14:46:20 1 0
iteration LogLik wall cpu(sec) restrained
1 -109.302 14:46:20 0 0
2 -106.862 14:46:20 0 0
3 -106.059 14:46:20 0 0
4 -105.816 14:46:20 0 0
5 -105.767 14:46:20 0 0
6 -105.756 14:46:20 0 0
7 -105.753 14:46:21 1 0
8 -105.753 14:46:21 1 0
iteration LogLik wall cpu(sec) restrained
1 -113.27 14:46:21 0 0
2 -112.16 14:46:21 0 0
3 -111.774 14:46:21 0 0
4 -111.67 14:46:21 0 0
5 -111.653 14:46:21 0 0
6 -111.649 14:46:21 0 0
7 -111.649 14:46:21 0 0
iteration LogLik wall cpu(sec) restrained
1 -111.134 14:46:22 0 0
2 -109.467 14:46:22 0 0
3 -109.057 14:46:22 0 0
4 -108.994 14:46:22 0 0
5 -108.99 14:46:22 0 0
6 -108.99 14:46:22 0 0
iteration LogLik wall cpu(sec) restrained
1 -108.535 14:46:22 0 0
2 -104.568 14:46:22 0 0
3 -102.866 14:46:23 1 0
4 -102.163 14:46:23 1 0
5 -101.972 14:46:23 1 0
6 -101.92 14:46:23 1 0
7 -101.906 14:46:23 1 0
8 -101.902 14:46:23 1 0
9 -101.901 14:46:23 1 0
iteration LogLik wall cpu(sec) restrained
1 -115.513 14:46:23 0 0
2 -114.481 14:46:23 0 0
3 -113.96 14:46:23 0 0
4 -113.756 14:46:23 0 0
5 -113.703 14:46:24 1 0
6 -113.688 14:46:24 1 0
7 -113.683 14:46:24 1 0
8 -113.682 14:46:24 1 0
9 -113.681 14:46:24 1 0
iteration LogLik wall cpu(sec) restrained
1 -111.391 14:46:24 0 0
2 -109.24 14:46:24 0 0
3 -108.236 14:46:24 0 0
4 -107.777 14:46:24 0 0
5 -107.619 14:46:24 0 0
6 -107.56 14:46:25 1 0
7 -107.537 14:46:25 1 0
8 -107.529 14:46:25 1 0
9 -107.525 14:46:25 1 0
10 -107.524 14:46:25 1 0
11 -107.524 14:46:25 1 0
iteration LogLik wall cpu(sec) restrained
1 -112.141 14:46:25 0 0
2 -110.409 14:46:25 0 0
3 -109.754 14:46:25 0 0
4 -109.559 14:46:25 0 0
5 -109.522 14:46:26 1 0
6 -109.515 14:46:26 1 0
7 -109.513 14:46:26 1 0
8 -109.513 14:46:26 1 0
iteration LogLik wall cpu(sec) restrained
1 -109.674 14:46:26 0 0
2 -107.379 14:46:26 0 0
3 -106.736 14:46:26 0 0
4 -106.585 14:46:26 0 0
5 -106.565 14:46:26 0 0
6 -106.562 14:46:26 0 0
7 -106.561 14:46:26 0 0
iteration LogLik wall cpu(sec) restrained
1 -111.904 14:46:27 0 0
2 -110.092 14:46:27 0 0
3 -109.336 14:46:27 0 0
4 -109.06 14:46:27 0 0
5 -108.99 14:46:27 0 0
6 -108.97 14:46:27 0 0
7 -108.965 14:46:27 0 0
8 -108.963 14:46:27 0 0
9 -108.962 14:46:27 0 0
iteration LogLik wall cpu(sec) restrained
1 -114.645 14:46:28 0 0
2 -113.889 14:46:28 0 0
3 -113.638 14:46:28 0 0
4 -113.581 14:46:28 0 0
5 -113.573 14:46:28 0 0
6 -113.572 14:46:28 0 0
7 -113.572 14:46:28 0 0
iteration LogLik wall cpu(sec) restrained
1 -159.171 14:45:50 0 0
2 -159.029 14:45:50 0 0
3 -158.947 14:45:50 0 0
4 -158.918 14:45:50 0 0
5 -158.913 14:45:51 1 0
6 -158.912 14:45:51 1 0
7 -158.911 14:45:51 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.634 14:45:52 1 0
2 -152.995 14:45:52 1 0
3 -152.228 14:45:52 1 0
4 -152.052 14:45:52 1 0
5 -152.039 14:45:52 1 0
6 -152.038 14:45:52 1 0
7 -152.037 14:45:53 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.37 14:45:53 0 0
2 -154.931 14:45:53 0 0
3 -153.98 14:45:54 1 0
4 -153.614 14:45:54 1 0
5 -153.55 14:45:54 1 0
6 -153.541 14:45:54 1 0
7 -153.539 14:45:54 1 0
8 -153.539 14:45:55 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.306 14:45:55 0 0
2 -155.234 14:45:55 0 0
3 -154.7 14:45:56 1 0
4 -154.547 14:45:56 1 0
5 -154.528 14:45:56 1 0
6 -154.525 14:45:56 1 0
7 -154.525 14:45:57 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.68 14:45:57 0 0
2 -155.296 14:45:57 0 0
3 -154.415 14:45:57 0 0
4 -154.064 14:45:58 1 0
5 -153.992 14:45:58 1 0
6 -153.978 14:45:58 1 0
7 -153.975 14:45:58 1 0
8 -153.975 14:45:59 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.779 14:45:59 0 0
2 -155.575 14:45:59 0 0
3 -154.736 14:45:59 0 0
4 -154.346 14:46:0 1 0
5 -154.245 14:46:0 1 0
6 -154.221 14:46:0 1 0
7 -154.215 14:46:0 1 0
8 -154.214 14:46:1 2 0
9 -154.214 14:46:1 2 0
iteration LogLik wall cpu(sec) restrained
1 -157.878 14:46:1 0 0
2 -157.575 14:46:1 0 0
3 -157.42 14:46:2 1 0
4 -157.373 14:46:2 1 0
5 -157.365 14:46:2 1 0
6 -157.364 14:46:2 1 0
7 -157.364 14:46:2 1 0
iteration LogLik wall cpu(sec) restrained
1 -153.581 14:46:3 0 0
2 -150.814 14:46:3 0 0
3 -149.327 14:46:3 0 0
4 -148.923 14:46:4 1 0
5 -148.884 14:46:4 1 0
6 -148.881 14:46:4 1 0
7 -148.881 14:46:4 1 0
iteration LogLik wall cpu(sec) restrained
1 -156.775 14:46:5 0 0
2 -155.211 14:46:5 0 0
3 -154.241 14:46:5 0 0
4 -153.929 14:46:5 0 0
5 -153.893 14:46:6 1 0
6 -153.89 14:46:6 1 0
7 -153.89 14:46:6 1 0
iteration LogLik wall cpu(sec) restrained
1 -160.335 14:46:6 0 0
2 -160.254 14:46:7 1 0
3 -160.206 14:46:7 1 0
4 -160.188 14:46:7 1 0
5 -160.184 14:46:7 1 0
6 -160.184 14:46:7 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.249 14:46:8 0 0
2 -152.102 14:46:8 0 0
3 -150.887 14:46:8 0 0
4 -150.523 14:46:8 0 0
5 -150.481 14:46:9 1 0
6 -150.477 14:46:9 1 0
7 -150.477 14:46:9 1 0
iteration LogLik wall cpu(sec) restrained
1 -155.595 14:46:10 1 0
2 -154.619 14:46:10 1 0
3 -154.212 14:46:10 1 0
4 -154.13 14:46:10 1 0
5 -154.124 14:46:10 1 0
6 -154.124 14:46:11 2 0
iteration LogLik wall cpu(sec) restrained
1 -155.457 14:46:11 0 0
2 -153.278 14:46:11 0 0
3 -151.843 14:46:11 0 0
4 -151.302 14:46:12 1 0
5 -151.215 14:46:12 1 0
6 -151.203 14:46:12 1 0
7 -151.201 14:46:12 1 0
8 -151.201 14:46:13 2 0
iteration LogLik wall cpu(sec) restrained
1 -158.841 14:46:13 0 0
2 -158.552 14:46:13 0 0
3 -158.37 14:46:14 1 0
4 -158.293 14:46:14 1 0
5 -158.274 14:46:14 1 0
6 -158.27 14:46:14 1 0
7 -158.268 14:46:14 1 0
8 -158.268 14:46:15 2 0
iteration LogLik wall cpu(sec) restrained
1 -160.349 14:46:15 0 0
2 -160.166 14:46:15 0 0
3 -160.041 14:46:16 1 0
4 -159.984 14:46:16 1 0
5 -159.969 14:46:16 1 0
6 -159.965 14:46:16 1 0
7 -159.964 14:46:16 1 0
iteration LogLik wall cpu(sec) restrained
1 -158.574 14:46:17 0 0
2 -158.076 14:46:17 0 0
3 -157.727 14:46:17 0 0
4 -157.557 14:46:18 1 0
5 -157.507 14:46:18 1 0
6 -157.493 14:46:18 1 0
7 -157.489 14:46:18 1 0
8 -157.488 14:46:18 1 0
9 -157.487 14:46:19 2 0
iteration LogLik wall cpu(sec) restrained
1 -155.256 14:46:19 0 0
2 -153.518 14:46:19 0 0
3 -152.407 14:46:20 1 0
4 -152.003 14:46:20 1 0
5 -151.942 14:46:20 1 0
6 -151.934 14:46:20 1 0
7 -151.933 14:46:21 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.611 14:46:21 0 0
2 -155.927 14:46:21 0 0
3 -155.551 14:46:22 1 0
4 -155.419 14:46:22 1 0
5 -155.394 14:46:22 1 0
6 -155.389 14:46:22 1 0
7 -155.388 14:46:22 1 0
iteration LogLik wall cpu(sec) restrained
1 -157.026 14:46:23 0 0
2 -155.776 14:46:23 0 0
3 -155.024 14:46:23 0 0
4 -154.768 14:46:24 1 0
5 -154.73 14:46:24 1 0
6 -154.725 14:46:24 1 0
7 -154.725 14:46:24 1 0
iteration LogLik wall cpu(sec) restrained
1 -157.67 14:46:25 1 0
2 -156.667 14:46:25 1 0
3 -156.114 14:46:25 1 0
4 -155.949 14:46:25 1 0
5 -155.929 14:46:25 1 0
6 -155.927 14:46:26 2 0
7 -155.926 14:46:26 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.902 14:46:26 0 0
2 -155.776 14:46:26 0 0
3 -155.103 14:46:27 1 0
4 -154.875 14:46:27 1 0
5 -154.841 14:46:27 1 0
6 -154.837 14:46:27 1 0
7 -154.836 14:46:27 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.906 14:46:28 0 0
2 -152.81 14:46:28 0 0
3 -151.45 14:46:28 0 0
4 -150.953 14:46:28 0 0
5 -150.877 14:46:29 1 0
6 -150.867 14:46:29 1 0
7 -150.865 14:46:29 1 0
8 -150.865 14:46:29 1 0
iteration LogLik wall cpu(sec) restrained
1 -156.937 14:46:29 0 0
2 -156.019 14:46:30 1 0
3 -155.454 14:46:30 1 0
4 -155.249 14:46:30 1 0
5 -155.214 14:46:30 1 0
6 -155.208 14:46:30 1 0
7 -155.207 14:46:30 1 0
iteration LogLik wall cpu(sec) restrained
1 -157.607 14:46:31 0 0
2 -156.419 14:46:31 0 0
3 -155.672 14:46:31 0 0
4 -155.393 14:46:31 0 0
5 -155.345 14:46:31 0 0
6 -155.337 14:46:32 1 0
7 -155.335 14:46:32 1 0
8 -155.335 14:46:32 1 0
iteration LogLik wall cpu(sec) restrained
1 -156.463 14:46:32 0 0
2 -155.935 14:46:32 0 0
3 -155.745 14:46:32 0 0
4 -155.713 14:46:33 1 0
5 -155.711 14:46:33 1 0
6 -155.711 14:46:33 1 0
iteration LogLik wall cpu(sec) restrained
1 -155.142 14:45:50 0 0
2 -154.582 14:45:50 0 0
3 -154.298 14:45:51 1 0
4 -154.22 14:45:51 1 0
5 -154.211 14:45:51 1 0
6 -154.21 14:45:51 1 0
iteration LogLik wall cpu(sec) restrained
1 -158.374 14:45:52 1 0
2 -158.374 14:45:52 1 0
3 -158.374 14:45:52 1 0
4 -158.374 14:45:52 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.759 14:45:53 0 0
2 -149.951 14:45:53 0 0
3 -149.054 14:45:53 0 0
4 -148.815 14:45:53 0 0
5 -148.789 14:45:53 0 0
6 -148.787 14:45:54 1 0
7 -148.787 14:45:54 1 0
iteration LogLik wall cpu(sec) restrained
1 -155.613 14:45:54 0 0
2 -154.672 14:45:54 0 0
3 -154.032 14:45:55 1 0
4 -153.756 14:45:55 1 0
5 -153.695 14:45:55 1 0
6 -153.681 14:45:55 1 0
7 -153.679 14:45:56 2 0
8 -153.678 14:45:56 2 0
iteration LogLik wall cpu(sec) restrained
1 -155.979 14:45:56 0 0
2 -155.645 14:45:57 1 0
3 -155.463 14:45:57 1 0
4 -155.402 14:45:57 1 0
5 -155.392 14:45:57 1 0
6 -155.39 14:45:57 1 0
7 -155.39 14:45:58 2 0
iteration LogLik wall cpu(sec) restrained
1 -155.312 14:45:58 0 0
2 -155.108 14:45:58 0 0
3 -155.007 14:45:58 0 0
4 -154.978 14:45:59 1 0
5 -154.974 14:45:59 1 0
6 -154.973 14:45:59 1 0
iteration LogLik wall cpu(sec) restrained
1 -153.635 14:45:59 0 0
2 -152.831 14:46:0 1 0
3 -152.517 14:46:0 1 0
4 -152.463 14:46:0 1 0
5 -152.461 14:46:0 1 0
6 -152.46 14:46:0 1 0
iteration LogLik wall cpu(sec) restrained
1 -155.77 14:46:1 0 0
2 -155.439 14:46:1 0 0
3 -155.28 14:46:1 0 0
4 -155.24 14:46:1 0 0
5 -155.236 14:46:2 1 0
6 -155.236 14:46:2 1 0
iteration LogLik wall cpu(sec) restrained
1 -153.752 14:46:2 0 0
2 -151.881 14:46:3 1 0
3 -150.281 14:46:3 1 0
4 -149.275 14:46:3 1 0
5 -148.912 14:46:3 1 0
6 -148.798 14:46:3 1 0
7 -148.766 14:46:4 2 0
8 -148.757 14:46:4 2 0
9 -148.755 14:46:4 2 0
10 -148.754 14:46:4 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.656 14:46:5 1 0
2 -156.312 14:46:5 1 0
3 -156.111 14:46:5 1 0
4 -156.04 14:46:5 1 0
5 -156.028 14:46:5 1 0
6 -156.026 14:46:6 2 0
7 -156.025 14:46:6 2 0
iteration LogLik wall cpu(sec) restrained
1 -153.045 14:46:6 0 0
2 -151.601 14:46:6 0 0
3 -150.812 14:46:7 1 0
4 -150.582 14:46:7 1 0
5 -150.556 14:46:7 1 0
6 -150.553 14:46:7 1 0
7 -150.553 14:46:7 1 0
iteration LogLik wall cpu(sec) restrained
1 -157.776 14:46:8 0 0
2 -157.706 14:46:8 0 0
3 -157.665 14:46:8 0 0
4 -157.65 14:46:8 0 0
5 -157.648 14:46:9 1 0
6 -157.647 14:46:9 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.762 14:46:9 0 0
2 -154.009 14:46:10 1 0
3 -153.593 14:46:10 1 0
4 -153.456 14:46:10 1 0
5 -153.434 14:46:10 1 0
6 -153.431 14:46:10 1 0
7 -153.43 14:46:11 2 0
iteration LogLik wall cpu(sec) restrained
1 -155.735 14:46:11 0 0
2 -155.407 14:46:11 0 0
3 -155.228 14:46:11 0 0
4 -155.167 14:46:12 1 0
5 -155.157 14:46:12 1 0
6 -155.155 14:46:12 1 0
7 -155.154 14:46:12 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.833 14:46:13 1 0
2 -154.041 14:46:13 1 0
3 -153.564 14:46:13 1 0
4 -153.379 14:46:13 1 0
5 -153.341 14:46:14 2 0
6 -153.332 14:46:14 2 0
7 -153.331 14:46:14 2 0
8 -153.33 14:46:14 2 0
iteration LogLik wall cpu(sec) restrained
1 -155.417 14:46:15 0 0
2 -154.871 14:46:15 0 0
3 -154.561 14:46:15 0 0
4 -154.457 14:46:15 0 0
5 -154.44 14:46:16 1 0
6 -154.438 14:46:16 1 0
7 -154.437 14:46:16 1 0
iteration LogLik wall cpu(sec) restrained
1 -157.275 14:46:16 0 0
2 -157.17 14:46:17 1 0
3 -157.108 14:46:17 1 0
4 -157.086 14:46:17 1 0
5 -157.082 14:46:17 1 0
6 -157.082 14:46:17 1 0
iteration LogLik wall cpu(sec) restrained
1 -153.407 14:46:18 0 0
2 -151.809 14:46:18 0 0
3 -150.83 14:46:18 0 0
4 -150.481 14:46:19 1 0
5 -150.426 14:46:19 1 0
6 -150.418 14:46:19 1 0
7 -150.417 14:46:19 1 0
8 -150.417 14:46:20 2 0
iteration LogLik wall cpu(sec) restrained
1 -153.231 14:46:20 0 0
2 -152.376 14:46:21 1 0
3 -152.023 14:46:21 1 0
4 -151.949 14:46:21 1 0
5 -151.943 14:46:21 1 0
6 -151.943 14:46:21 1 0
iteration LogLik wall cpu(sec) restrained
1 -155.858 14:46:22 0 0
2 -155.467 14:46:22 0 0
3 -155.258 14:46:23 1 0
4 -155.188 14:46:23 1 0
5 -155.176 14:46:23 1 0
6 -155.174 14:46:23 1 0
7 -155.174 14:46:23 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.035 14:46:24 1 0
2 -153.139 14:46:24 1 0
3 -152.652 14:46:24 1 0
4 -152.499 14:46:24 1 0
5 -152.477 14:46:24 1 0
6 -152.474 14:46:25 2 0
7 -152.474 14:46:25 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.884 14:46:25 0 0
2 -156.77 14:46:25 0 0
3 -156.712 14:46:26 1 0
4 -156.695 14:46:26 1 0
5 -156.693 14:46:26 1 0
6 -156.693 14:46:26 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.869 14:46:27 1 0
2 -154.573 14:46:27 1 0
3 -154.413 14:46:27 1 0
4 -154.357 14:46:27 1 0
5 -154.347 14:46:27 1 0
6 -154.345 14:46:28 2 0
7 -154.345 14:46:28 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.097 14:46:28 0 0
2 -152.437 14:46:28 0 0
3 -151.291 14:46:28 0 0
4 -150.769 14:46:29 1 0
5 -150.64 14:46:29 1 0
6 -150.61 14:46:29 1 0
7 -150.603 14:46:29 1 0
8 -150.602 14:46:29 1 0
9 -150.601 14:46:29 1 0
iteration LogLik wall cpu(sec) restrained
1 -153.848 14:46:30 0 0
2 -152.928 14:46:30 0 0
3 -152.528 14:46:30 0 0
4 -152.442 14:46:30 0 0
5 -152.436 14:46:30 0 0
6 -152.436 14:46:31 1 0
iteration LogLik wall cpu(sec) restrained
1 -117.969 14:45:50 0 0
2 -117.367 14:45:50 0 0
3 -117.098 14:45:50 0 0
4 -117.039 14:45:51 1 0
5 -117.034 14:45:51 1 0
6 -117.034 14:45:51 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.612 14:45:51 0 0
2 -118.304 14:45:51 0 0
3 -118.156 14:45:51 0 0
4 -118.115 14:45:51 0 0
5 -118.111 14:45:51 0 0
6 -118.11 14:45:51 0 0
iteration LogLik wall cpu(sec) restrained
1 -115.3 14:45:52 0 0
2 -114.223 14:45:52 0 0
3 -113.758 14:45:52 0 0
4 -113.64 14:45:52 0 0
5 -113.627 14:45:52 0 0
6 -113.626 14:45:52 0 0
7 -113.625 14:45:52 0 0
iteration LogLik wall cpu(sec) restrained
1 -118.776 14:45:52 0 0
2 -118.632 14:45:53 1 0
3 -118.579 14:45:53 1 0
4 -118.571 14:45:53 1 0
5 -118.571 14:45:53 1 0
iteration LogLik wall cpu(sec) restrained
1 -117.67 14:45:53 0 0
2 -116.691 14:45:53 0 0
3 -115.991 14:45:53 0 0
4 -115.638 14:45:53 0 0
5 -115.533 14:45:53 0 0
6 -115.504 14:45:53 0 0
7 -115.495 14:45:53 0 0
8 -115.493 14:45:54 1 0
9 -115.492 14:45:54 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.356 14:45:54 0 0
2 -118.264 14:45:54 0 0
3 -118.235 14:45:54 0 0
4 -118.232 14:45:54 0 0
5 -118.231 14:45:54 0 0
iteration LogLik wall cpu(sec) restrained
1 -118.811 14:45:54 0 0
2 -118.526 14:45:55 1 0
3 -118.373 14:45:55 1 0
4 -118.323 14:45:55 1 0
5 -118.315 14:45:55 1 0
6 -118.314 14:45:55 1 0
7 -118.314 14:45:55 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.101 14:45:55 0 0
2 -117.311 14:45:55 0 0
3 -116.795 14:45:55 0 0
4 -116.581 14:45:55 0 0
5 -116.536 14:45:56 1 0
6 -116.527 14:45:56 1 0
7 -116.525 14:45:56 1 0
8 -116.524 14:45:56 1 0
iteration LogLik wall cpu(sec) restrained
1 -115.863 14:45:56 0 0
2 -114.676 14:45:56 0 0
3 -114.167 14:45:56 0 0
4 -114.049 14:45:56 0 0
5 -114.038 14:45:56 0 0
6 -114.037 14:45:57 1 0
7 -114.037 14:45:57 1 0
iteration LogLik wall cpu(sec) restrained
1 -116.334 14:45:57 0 0
2 -115.317 14:45:57 0 0
3 -114.81 14:45:57 0 0
4 -114.637 14:45:57 0 0
5 -114.603 14:45:57 0 0
6 -114.596 14:45:57 0 0
7 -114.594 14:45:57 0 0
8 -114.594 14:45:57 0 0
iteration LogLik wall cpu(sec) restrained
1 -121.312 14:45:58 0 0
2 -121.311 14:45:58 0 0
3 -121.311 14:45:58 0 0
4 -121.311 14:45:58 0 0
iteration LogLik wall cpu(sec) restrained
1 -117.358 14:45:58 0 0
2 -116.273 14:45:58 0 0
3 -115.57 14:45:58 0 0
4 -115.273 14:45:58 0 0
5 -115.205 14:45:59 1 0
6 -115.191 14:45:59 1 0
7 -115.188 14:45:59 1 0
8 -115.187 14:45:59 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.159 14:45:59 0 0
2 -117.642 14:45:59 0 0
3 -117.356 14:45:59 0 0
4 -117.26 14:45:59 0 0
5 -117.245 14:45:59 0 0
6 -117.242 14:45:59 0 0
7 -117.242 14:46:0 1 0
iteration LogLik wall cpu(sec) restrained
1 -116 14:46:0 0 0
2 -115.387 14:46:0 0 0
3 -115.172 14:46:0 0 0
4 -115.133 14:46:0 0 0
5 -115.131 14:46:0 0 0
6 -115.131 14:46:0 0 0
iteration LogLik wall cpu(sec) restrained
1 -113.424 14:46:0 0 0
2 -110.674 14:46:0 0 0
3 -109.088 14:46:1 1 0
4 -108.445 14:46:1 1 0
5 -108.303 14:46:1 1 0
6 -108.272 14:46:1 1 0
7 -108.266 14:46:1 1 0
8 -108.265 14:46:1 1 0
9 -108.265 14:46:1 1 0
iteration LogLik wall cpu(sec) restrained
1 -116.907 14:46:1 0 0
2 -116.314 14:46:1 0 0
3 -116.112 14:46:1 0 0
4 -116.082 14:46:2 1 0
5 -116.08 14:46:2 1 0
6 -116.08 14:46:2 1 0
iteration LogLik wall cpu(sec) restrained
1 -117.004 14:46:2 0 0
2 -116.424 14:46:2 0 0
3 -116.14 14:46:2 0 0
4 -116.05 14:46:2 0 0
5 -116.035 14:46:2 0 0
6 -116.033 14:46:2 0 0
7 -116.032 14:46:2 0 0
iteration LogLik wall cpu(sec) restrained
1 -119.136 14:46:3 0 0
2 -118.801 14:46:3 0 0
3 -118.582 14:46:3 0 0
4 -118.489 14:46:3 0 0
5 -118.467 14:46:3 0 0
6 -118.463 14:46:3 0 0
7 -118.462 14:46:3 0 0
8 -118.461 14:46:3 0 0
iteration LogLik wall cpu(sec) restrained
1 -117.852 14:46:4 0 0
2 -117.219 14:46:4 0 0
3 -116.902 14:46:4 0 0
4 -116.812 14:46:4 0 0
5 -116.8 14:46:4 0 0
6 -116.799 14:46:4 0 0
7 -116.798 14:46:4 0 0
iteration LogLik wall cpu(sec) restrained
1 -116.731 14:46:4 0 0
2 -116.045 14:46:4 0 0
3 -115.788 14:46:5 1 0
4 -115.745 14:46:5 1 0
5 -115.743 14:46:5 1 0
6 -115.743 14:46:5 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.691 14:46:5 0 0
2 -118.406 14:46:5 0 0
3 -118.262 14:46:5 0 0
4 -118.219 14:46:5 0 0
5 -118.213 14:46:5 0 0
6 -118.213 14:46:5 0 0
iteration LogLik wall cpu(sec) restrained
1 -117.102 14:46:6 0 0
2 -116.533 14:46:6 0 0
3 -116.31 14:46:6 0 0
4 -116.266 14:46:6 0 0
5 -116.262 14:46:6 0 0
6 -116.262 14:46:6 0 0
iteration LogLik wall cpu(sec) restrained
1 -116.411 14:46:6 0 0
2 -114.928 14:46:6 0 0
3 -114.066 14:46:6 0 0
4 -113.769 14:46:6 0 0
5 -113.72 14:46:7 1 0
6 -113.713 14:46:7 1 0
7 -113.712 14:46:7 1 0
8 -113.711 14:46:7 1 0
iteration LogLik wall cpu(sec) restrained
1 -116.346 14:46:7 0 0
2 -115.04 14:46:7 0 0
3 -114.352 14:46:7 0 0
4 -114.138 14:46:7 0 0
5 -114.108 14:46:7 0 0
6 -114.103 14:46:7 0 0
7 -114.103 14:46:8 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.98 14:46:8 0 0
2 -118.861 14:46:8 0 0
3 -118.807 14:46:8 0 0
4 -118.794 14:46:8 0 0
5 -118.792 14:46:8 0 0
6 -118.792 14:46:8 0 0
iteration LogLik wall cpu(sec) restrained
1 -149.711 14:46:9 1 0
2 -148.762 14:46:9 1 0
3 -148.504 14:46:9 1 0
4 -148.478 14:46:9 1 0
5 -148.478 14:46:9 1 0
iteration LogLik wall cpu(sec) restrained
1 -149.864 14:46:10 0 0
2 -148.381 14:46:10 0 0
3 -147.803 14:46:10 0 0
4 -147.696 14:46:10 0 0
5 -147.69 14:46:11 1 0
6 -147.69 14:46:11 1 0
iteration LogLik wall cpu(sec) restrained
1 -143.748 14:46:11 0 0
2 -140.364 14:46:11 0 0
3 -139.388 14:46:12 1 0
4 -139.261 14:46:12 1 0
5 -139.257 14:46:12 1 0
6 -139.257 14:46:12 1 0
iteration LogLik wall cpu(sec) restrained
1 -147.588 14:46:13 0 0
2 -146.187 14:46:13 0 0
3 -145.835 14:46:13 0 0
4 -145.798 14:46:14 1 0
5 -145.797 14:46:14 1 0
iteration LogLik wall cpu(sec) restrained
1 -147.42 14:46:14 0 0
2 -145.484 14:46:15 1 0
3 -144.729 14:46:15 1 0
4 -144.558 14:46:15 1 0
5 -144.542 14:46:15 1 0
6 -144.541 14:46:15 1 0
7 -144.541 14:46:16 2 0
iteration LogLik wall cpu(sec) restrained
1 -144.372 14:46:16 0 0
2 -141.663 14:46:16 0 0
3 -140.773 14:46:16 0 0
4 -140.619 14:46:17 1 0
5 -140.611 14:46:17 1 0
6 -140.61 14:46:17 1 0
iteration LogLik wall cpu(sec) restrained
1 -146.862 14:46:17 0 0
2 -144.349 14:46:18 1 0
3 -143.418 14:46:18 1 0
4 -143.234 14:46:18 1 0
5 -143.221 14:46:18 1 0
6 -143.22 14:46:19 2 0
iteration LogLik wall cpu(sec) restrained
1 -151.217 14:46:19 0 0
2 -150.79 14:46:19 0 0
3 -150.658 14:46:20 1 0
4 -150.64 14:46:20 1 0
5 -150.639 14:46:20 1 0
iteration LogLik wall cpu(sec) restrained
1 -148.907 14:46:20 0 0
2 -147.404 14:46:21 1 0
3 -146.843 14:46:21 1 0
4 -146.725 14:46:21 1 0
5 -146.715 14:46:21 1 0
6 -146.714 14:46:21 1 0
iteration LogLik wall cpu(sec) restrained
1 -148.943 14:46:22 0 0
2 -147.752 14:46:22 0 0
3 -147.411 14:46:22 0 0
4 -147.371 14:46:23 1 0
5 -147.37 14:46:23 1 0
iteration LogLik wall cpu(sec) restrained
1 -146.339 14:46:23 0 0
2 -143.498 14:46:23 0 0
3 -142.52 14:46:24 1 0
4 -142.378 14:46:24 1 0
5 -142.374 14:46:24 1 0
6 -142.374 14:46:24 1 0
iteration LogLik wall cpu(sec) restrained
1 -145.815 14:46:25 1 0
2 -143.59 14:46:25 1 0
3 -142.847 14:46:25 1 0
4 -142.701 14:46:25 1 0
5 -142.69 14:46:25 1 0
6 -142.689 14:46:26 2 0
iteration LogLik wall cpu(sec) restrained
1 -150.466 14:46:26 0 0
2 -149.547 14:46:26 0 0
3 -149.202 14:46:26 0 0
4 -149.132 14:46:27 1 0
5 -149.127 14:46:27 1 0
6 -149.126 14:46:27 1 0
iteration LogLik wall cpu(sec) restrained
1 -148.149 14:46:27 0 0
2 -146.492 14:46:28 1 0
3 -145.929 14:46:28 1 0
4 -145.828 14:46:28 1 0
5 -145.822 14:46:28 1 0
6 -145.821 14:46:28 1 0
iteration LogLik wall cpu(sec) restrained
1 -149.127 14:46:29 1 0
2 -148.376 14:46:29 1 0
3 -148.21 14:46:29 1 0
4 -148.198 14:46:29 1 0
5 -148.198 14:46:29 1 0
iteration LogLik wall cpu(sec) restrained
1 -150.483 14:46:30 0 0
2 -149.764 14:46:30 0 0
3 -149.576 14:46:30 0 0
4 -149.558 14:46:30 0 0
5 -149.558 14:46:30 0 0
iteration LogLik wall cpu(sec) restrained
1 -146.838 14:46:31 1 0
2 -144.949 14:46:31 1 0
3 -144.342 14:46:31 1 0
4 -144.243 14:46:31 1 0
5 -144.238 14:46:31 1 0
6 -144.238 14:46:31 1 0
iteration LogLik wall cpu(sec) restrained
1 -141.917 14:46:32 0 0
2 -136.862 14:46:32 0 0
3 -134.887 14:46:32 0 0
4 -134.484 14:46:32 0 0
5 -134.459 14:46:32 0 0
6 -134.457 14:46:32 0 0
7 -134.457 14:46:33 1 0
iteration LogLik wall cpu(sec) restrained
1 -147.556 14:46:33 0 0
2 -145.487 14:46:33 0 0
3 -144.772 14:46:33 0 0
4 -144.641 14:46:33 0 0
5 -144.633 14:46:33 0 0
6 -144.632 14:46:34 1 0
iteration LogLik wall cpu(sec) restrained
1 -150.144 14:46:34 0 0
2 -149.253 14:46:34 0 0
3 -148.936 14:46:34 0 0
4 -148.882 14:46:34 0 0
5 -148.879 14:46:34 0 0
6 -148.879 14:46:34 0 0
iteration LogLik wall cpu(sec) restrained
1 -147.376 14:46:35 0 0
2 -145.509 14:46:35 0 0
3 -144.978 14:46:35 0 0
4 -144.914 14:46:35 0 0
5 -144.913 14:46:35 0 0
6 -144.913 14:46:35 0 0
iteration LogLik wall cpu(sec) restrained
1 -148.516 14:46:36 0 0
2 -147.302 14:46:36 0 0
3 -146.911 14:46:36 0 0
4 -146.848 14:46:36 0 0
5 -146.845 14:46:36 0 0
6 -146.844 14:46:36 0 0
iteration LogLik wall cpu(sec) restrained
1 -141.686 14:46:37 1 0
2 -137.383 14:46:37 1 0
3 -136.138 14:46:37 1 0
4 -135.977 14:46:37 1 0
5 -135.972 14:46:37 1 0
6 -135.972 14:46:37 1 0
iteration LogLik wall cpu(sec) restrained
1 -150.901 14:46:37 0 0
2 -150.218 14:46:38 1 0
3 -150.029 14:46:38 1 0
4 -150.01 14:46:38 1 0
5 -150.009 14:46:38 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.093 14:46:38 0 0
2 -150.16 14:46:38 0 0
3 -149.737 14:46:38 0 0
4 -149.618 14:46:39 1 0
5 -149.601 14:46:39 1 0
6 -149.598 14:46:39 1 0
7 -149.598 14:46:39 1 0
iteration LogLik wall cpu(sec) restrained
1 -153.114 14:45:51 0 0
2 -152.841 14:45:51 0 0
3 -152.766 14:45:51 0 0
4 -152.759 14:45:51 0 0
5 -152.759 14:45:51 0 0
iteration LogLik wall cpu(sec) restrained
1 -150.294 14:45:52 0 0
2 -149.091 14:45:52 0 0
3 -148.652 14:45:52 0 0
4 -148.569 14:45:53 1 0
5 -148.563 14:45:53 1 0
6 -148.563 14:45:53 1 0
iteration LogLik wall cpu(sec) restrained
1 -149.7 14:45:53 0 0
2 -148.898 14:45:54 1 0
3 -148.688 14:45:54 1 0
4 -148.665 14:45:54 1 0
5 -148.665 14:45:54 1 0
iteration LogLik wall cpu(sec) restrained
1 -152.562 14:45:55 1 0
2 -152.195 14:45:55 1 0
3 -152.084 14:45:55 1 0
4 -152.071 14:45:55 1 0
5 -152.07 14:45:56 2 0
iteration LogLik wall cpu(sec) restrained
1 -149.609 14:45:56 0 0
2 -148.149 14:45:56 0 0
3 -147.592 14:45:56 0 0
4 -147.481 14:45:57 1 0
5 -147.473 14:45:57 1 0
6 -147.473 14:45:57 1 0
iteration LogLik wall cpu(sec) restrained
1 -149.047 14:45:58 1 0
2 -147.611 14:45:58 1 0
3 -147.189 14:45:58 1 0
4 -147.142 14:45:58 1 0
5 -147.141 14:45:58 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.119 14:45:59 0 0
2 -150.75 14:45:59 0 0
3 -150.663 14:45:59 0 0
4 -150.655 14:45:59 0 0
5 -150.655 14:46:0 1 0
iteration LogLik wall cpu(sec) restrained
1 -152.001 14:46:0 0 0
2 -150.716 14:46:0 0 0
3 -150.031 14:46:0 0 0
4 -149.81 14:46:1 1 0
5 -149.775 14:46:1 1 0
6 -149.77 14:46:1 1 0
7 -149.769 14:46:1 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.885 14:46:2 0 0
2 -151.52 14:46:2 0 0
3 -151.416 14:46:2 0 0
4 -151.404 14:46:2 0 0
5 -151.404 14:46:2 0 0
iteration LogLik wall cpu(sec) restrained
1 -152.678 14:46:3 0 0
2 -152.344 14:46:3 0 0
3 -152.247 14:46:3 0 0
4 -152.235 14:46:4 1 0
5 -152.235 14:46:4 1 0
iteration LogLik wall cpu(sec) restrained
1 -150.519 14:46:4 0 0
2 -149.35 14:46:4 0 0
3 -148.94 14:46:5 1 0
4 -148.874 14:46:5 1 0
5 -148.871 14:46:5 1 0
6 -148.871 14:46:5 1 0
iteration LogLik wall cpu(sec) restrained
1 -152.248 14:46:6 1 0
2 -151.544 14:46:6 1 0
3 -151.215 14:46:6 1 0
4 -151.124 14:46:6 1 0
5 -151.112 14:46:6 1 0
6 -151.11 14:46:7 2 0
7 -151.11 14:46:7 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.272 14:46:7 0 0
2 -151.801 14:46:7 0 0
3 -151.648 14:46:8 1 0
4 -151.626 14:46:8 1 0
5 -151.625 14:46:8 1 0
iteration LogLik wall cpu(sec) restrained
1 -149.214 14:46:8 0 0
2 -148.434 14:46:9 1 0
3 -148.269 14:46:9 1 0
4 -148.257 14:46:9 1 0
5 -148.257 14:46:9 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.621 14:46:10 1 0
2 -151.232 14:46:10 1 0
3 -151.125 14:46:10 1 0
4 -151.113 14:46:10 1 0
5 -151.113 14:46:10 1 0
iteration LogLik wall cpu(sec) restrained
1 -150.748 14:46:11 0 0
2 -150.196 14:46:11 0 0
3 -150.045 14:46:11 0 0
4 -150.029 14:46:11 0 0
5 -150.028 14:46:12 1 0
iteration LogLik wall cpu(sec) restrained
1 -148.483 14:46:12 0 0
2 -147.016 14:46:12 0 0
3 -146.681 14:46:13 1 0
4 -146.658 14:46:13 1 0
5 -146.658 14:46:13 1 0
iteration LogLik wall cpu(sec) restrained
1 -152.548 14:46:14 1 0
2 -152.11 14:46:14 1 0
3 -151.944 14:46:14 1 0
4 -151.914 14:46:14 1 0
5 -151.912 14:46:15 2 0
6 -151.912 14:46:15 2 0
iteration LogLik wall cpu(sec) restrained
1 -153.65 14:46:15 0 0
2 -153.09 14:46:15 0 0
3 -152.825 14:46:16 1 0
4 -152.753 14:46:16 1 0
5 -152.744 14:46:16 1 0
6 -152.743 14:46:16 1 0
7 -152.743 14:46:16 1 0
iteration LogLik wall cpu(sec) restrained
1 -149.022 14:46:17 0 0
2 -147.841 14:46:17 0 0
3 -147.492 14:46:17 0 0
4 -147.444 14:46:17 0 0
5 -147.442 14:46:18 1 0
6 -147.442 14:46:18 1 0
iteration LogLik wall cpu(sec) restrained
1 -150.409 14:46:18 0 0
2 -149.428 14:46:19 1 0
3 -149.127 14:46:19 1 0
4 -149.084 14:46:19 1 0
5 -149.083 14:46:19 1 0
6 -149.083 14:46:19 1 0
iteration LogLik wall cpu(sec) restrained
1 -148.563 14:46:20 0 0
2 -147.122 14:46:20 0 0
3 -146.654 14:46:20 0 0
4 -146.577 14:46:21 1 0
5 -146.572 14:46:21 1 0
6 -146.572 14:46:21 1 0
iteration LogLik wall cpu(sec) restrained
1 -149.897 14:46:21 0 0
2 -149.107 14:46:22 1 0
3 -148.899 14:46:22 1 0
4 -148.879 14:46:22 1 0
5 -148.879 14:46:22 1 0
iteration LogLik wall cpu(sec) restrained
1 -153.856 14:46:23 0 0
2 -153.447 14:46:23 0 0
3 -153.284 14:46:23 0 0
4 -153.252 14:46:23 0 0
5 -153.25 14:46:24 1 0
6 -153.25 14:46:24 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.439 14:46:24 0 0
2 -150.677 14:46:24 0 0
3 -150.378 14:46:25 1 0
4 -150.314 14:46:25 1 0
5 -150.309 14:46:25 1 0
6 -150.308 14:46:25 1 0
iteration LogLik wall cpu(sec) restrained
1 -156.549 14:45:51 0 0
2 -154.874 14:45:51 0 0
3 -153.726 14:45:51 0 0
4 -153.308 14:45:52 1 0
5 -153.253 14:45:52 1 0
6 -153.247 14:45:52 1 0
7 -153.246 14:45:52 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.639 14:45:53 1 0
2 -148.222 14:45:53 1 0
3 -146.591 14:45:53 1 0
4 -146.23 14:45:53 1 0
5 -146.206 14:45:53 1 0
6 -146.205 14:45:54 2 0
7 -146.204 14:45:54 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.624 14:45:54 0 0
2 -154.571 14:45:55 1 0
3 -153.132 14:45:55 1 0
4 -152.641 14:45:55 1 0
5 -152.588 14:45:55 1 0
6 -152.583 14:45:56 2 0
7 -152.583 14:45:56 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.542 14:45:56 0 0
2 -155.161 14:45:57 1 0
3 -154.376 14:45:57 1 0
4 -154.145 14:45:57 1 0
5 -154.119 14:45:57 1 0
6 -154.117 14:45:57 1 0
7 -154.116 14:45:58 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.218 14:45:58 0 0
2 -151.389 14:45:58 0 0
3 -149.24 14:45:59 1 0
4 -148.29 14:45:59 1 0
5 -148.118 14:45:59 1 0
6 -148.093 14:45:59 1 0
7 -148.09 14:45:59 1 0
8 -148.089 14:46:0 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.674 14:46:0 0 0
2 -153.333 14:46:0 0 0
3 -152.606 14:46:0 0 0
4 -152.392 14:46:1 1 0
5 -152.368 14:46:1 1 0
6 -152.366 14:46:1 1 0
7 -152.365 14:46:1 1 0
iteration LogLik wall cpu(sec) restrained
1 -157.633 14:46:2 0 0
2 -156.027 14:46:2 0 0
3 -154.812 14:46:2 0 0
4 -154.294 14:46:2 0 0
5 -154.202 14:46:3 1 0
6 -154.189 14:46:3 1 0
7 -154.187 14:46:3 1 0
8 -154.187 14:46:3 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.302 14:46:4 0 0
2 -150.265 14:46:4 0 0
3 -147.347 14:46:4 0 0
4 -146.417 14:46:4 0 0
5 -146.34 14:46:5 1 0
6 -146.336 14:46:5 1 0
7 -146.336 14:46:5 1 0
iteration LogLik wall cpu(sec) restrained
1 -152.117 14:46:6 1 0
2 -149.146 14:46:6 1 0
3 -147.609 14:46:6 1 0
4 -147.212 14:46:6 1 0
5 -147.178 14:46:6 1 0
6 -147.176 14:46:7 2 0
7 -147.175 14:46:7 2 0
iteration LogLik wall cpu(sec) restrained
1 -157.593 14:46:7 0 0
2 -156.115 14:46:7 0 0
3 -155.146 14:46:8 1 0
4 -154.823 14:46:8 1 0
5 -154.786 14:46:8 1 0
6 -154.782 14:46:8 1 0
7 -154.782 14:46:9 2 0
iteration LogLik wall cpu(sec) restrained
1 -155.213 14:46:9 0 0
2 -152.801 14:46:9 0 0
3 -151.372 14:46:9 0 0
4 -150.976 14:46:10 1 0
5 -150.944 14:46:10 1 0
6 -150.942 14:46:10 1 0
7 -150.942 14:46:10 1 0
iteration LogLik wall cpu(sec) restrained
1 -157.974 14:46:11 0 0
2 -156.897 14:46:11 0 0
3 -156.039 14:46:11 0 0
4 -155.597 14:46:11 0 0
5 -155.483 14:46:12 1 0
6 -155.457 14:46:12 1 0
7 -155.452 14:46:12 1 0
8 -155.451 14:46:12 1 0
9 -155.451 14:46:12 1 0
iteration LogLik wall cpu(sec) restrained
1 -155.954 14:46:13 0 0
2 -153.847 14:46:13 0 0
3 -152.246 14:46:13 0 0
4 -151.544 14:46:14 1 0
5 -151.417 14:46:14 1 0
6 -151.399 14:46:14 1 0
7 -151.397 14:46:14 1 0
8 -151.396 14:46:15 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.836 14:46:15 0 0
2 -152.434 14:46:15 0 0
3 -151.045 14:46:16 1 0
4 -150.702 14:46:16 1 0
5 -150.682 14:46:16 1 0
6 -150.681 14:46:16 1 0
iteration LogLik wall cpu(sec) restrained
1 -153.227 14:46:17 1 0
2 -150.495 14:46:17 1 0
3 -149.08 14:46:17 1 0
4 -148.72 14:46:17 1 0
5 -148.69 14:46:17 1 0
6 -148.688 14:46:18 2 0
7 -148.688 14:46:18 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.071 14:46:18 0 0
2 -152.615 14:46:19 1 0
3 -151.882 14:46:19 1 0
4 -151.683 14:46:19 1 0
5 -151.663 14:46:19 1 0
6 -151.661 14:46:20 2 0
7 -151.661 14:46:20 2 0
iteration LogLik wall cpu(sec) restrained
1 -158.259 14:46:20 0 0
2 -157.184 14:46:21 1 0
3 -156.43 14:46:21 1 0
4 -156.138 14:46:21 1 0
5 -156.093 14:46:21 1 0
6 -156.087 14:46:22 2 0
7 -156.086 14:46:22 2 0
iteration LogLik wall cpu(sec) restrained
1 -155.849 14:46:22 0 0
2 -154.389 14:46:23 1 0
3 -153.589 14:46:23 1 0
4 -153.366 14:46:23 1 0
5 -153.344 14:46:23 1 0
6 -153.342 14:46:23 1 0
7 -153.342 14:46:23 1 0
iteration LogLik wall cpu(sec) restrained
1 -152.199 14:46:24 0 0
2 -147.27 14:46:24 0 0
3 -143.95 14:46:24 0 0
4 -142.855 14:46:25 1 0
5 -142.732 14:46:25 1 0
6 -142.721 14:46:25 1 0
7 -142.72 14:46:25 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.984 14:46:26 0 0
2 -151.82 14:46:26 0 0
3 -149.4 14:46:26 0 0
4 -148.391 14:46:26 0 0
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5 -120.023 14:46:44 0 0The object “GEBVS_G_BLUP” contains the GEBVs for each trait and clone. The table above shows the first five clones and their GEBVs for each trait.
GEBVS_G_BLUP |>
group_by(Trait, ID_Clone) |>
summarise(GEBV = mean(GEBV)) %>%
pivot_wider(names_from = Trait, values_from = GEBV) %>%
head() %>%
kbl(escape = F, align = 'c') |>
kable_classic("hover", full_width = F, position = "center", fixed_thead = T)`summarise()` has grouped output by 'Trait'. You can override using the
`.groups` argument.| ID_Clone | DMC | FRY | HI | N_Roots | Nstem.Plant | Plant.Height | Root.Di | Root.Le | ShY | StC | StY | Stem.D |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| BGM_2042 | 0.4396486 | 1.0945731 | 1.5367885 | 0.3575712 | 0.1320577 | 0.0218642 | 0.4637015 | 1.0041085 | 1.7281854 | 0.4522471 | 0.2773797 | 0.0615555 |
| BGM0368.250437186 | 0.6183612 | -0.4291852 | 0.5874587 | 0.1107249 | -0.0221219 | -0.0074425 | -0.5080204 | -0.5459849 | -2.4883434 | 0.6245181 | -0.0396337 | -0.0388747 |
| BGM0424.250437187 | 0.0738619 | -0.1646794 | 0.0543841 | -0.1523849 | -0.0564455 | 0.0016752 | -0.3826374 | -0.4380215 | -1.3788151 | 0.0924512 | -0.0098418 | -0.0160907 |
| BGM0611.250437190 | -0.8639430 | -0.1746128 | -0.4760090 | -0.0025962 | 0.0412780 | -0.0513404 | -0.1812646 | 0.0714974 | -0.6252969 | -0.8570488 | -0.0597242 | -0.0697797 |
| BGM0652.250437861 | -0.1397058 | -0.0686700 | -0.3925016 | -0.0765310 | 0.0314649 | -0.0292519 | -0.3950229 | -0.1501383 | 0.0145408 | -0.1387849 | -0.0322588 | -0.0207814 |
| BGM0699.250437199 | -0.1876035 | -0.3585287 | -0.8669334 | -0.3302434 | -0.0585199 | -0.0095540 | -0.3312754 | -0.1395650 | -0.5442389 | -0.2016117 | -0.0897525 | 0.0310219 |
Acuracy and MSPE for each trait and repetition:
results_cv_G_BLUP[-c(6:7)] |>
group_by(Trait) %>%
summarise_all(mean) %>%
arrange(desc(Ac), MSPE) %>%
kbl(escape = F, align = 'c') |>
kable_classic("hover", full_width = F, position = "center", fixed_thead = T)| Trait | rep | Log | Ac | MSPE |
|---|---|---|---|---|
| Root.Le | 3 | 1 | 0.3672 | 1.8078 |
| Stem.D | 3 | 1 | 0.3468 | 0.0076 |
| FRY | 3 | 1 | 0.3266 | 1.1526 |
| ShY | 3 | 1 | 0.3210 | 12.5394 |
| Root.Di | 3 | 1 | 0.3180 | 3.3210 |
| StY | 3 | 1 | 0.3104 | 0.0702 |
| Plant.Height | 3 | 1 | 0.2932 | 0.0074 |
| Nstem.Plant | 3 | 1 | 0.2722 | 0.0276 |
| N_Roots | 3 | 1 | 0.2542 | 0.8574 |
| HI | 3 | 1 | 0.2406 | 11.8996 |
| StC | 3 | 1 | 0.2212 | 5.8236 |
| DMC | 3 | 1 | 0.2200 | 5.8532 |
The object “result_cv” is divided by repetition. In the “result_cv” objects for each repetition, “Rep” is the number of the repetition, “Log” is a diagnostic indicating if the order of the predicted breeding values matches the order of the adjusted means, “Ac” is the prediction accuracy (correlation between the GEBV and adjusted means), and “MSPE” is the mean square prediction error (the lower, the better).
In the GBLUP Additive-dominante, we will use the A (additive) and D(dominant) matrix instead of the SNPs matrix. Thus, we will obtain the GEBV directly. Note that we will need to build the G matrix again, since some genotypes were dropped after our filtering.
For this purpose, we will use the sommer package [@Covarrubias-Pazaran_2014]. In the code below, y is for the vector with the means, A is additive covariance matrix and D is dominance covariance matrix for the random effects, which will be and identity matrix by default; and X is a design matrix for the fixed effects, which will be a vector of ones (1) by default. Note that we are returning to the “1, 0, -1” codification in the SNPs matrix. This is a requirement of the sommer package.
To prove that the prediction is accurate, we should perform a cross-validation (CV) scheme. For this purpose, we divide the data into a training set and a validation set.
First we separate the data into k folds. Then, we attribute NA for one fold and try to predict the data from this fold based on the others. When selecting the number of folds, one must prioritize the balance between the number of observations in each fold.
In addition, this process should be repeated for further validation. The step-by-step below will guide the CV in the data we are analysing.
Since we defined 5 folds, our data will be divided into 5 parts with 83 observations each.
The order is decreasing or increasing (numeric or alphabetical) regarding the name of the genotypes.
pheno <- pheno[order(pheno$ID_Clone, decreasing = F),]
geno <- geno[order(row.names(geno)),]
all(rownames(geno) == pheno$ID_Clone)[1] TRUEThis will be useful to assign each observation for a fold, which will be the next step.
In this step, we will assign each observation to a fold. Bear in mind that for each repetition, the folds will comprise different observations. The purpose of the repetition is to make sure of the randomness of the assignment step.
In this step, we will use the cvTools package [@cvTools]
For better performance, we included this step in the loop of the next step.
The next step is the very CV. Here, we will define the linear predictor and the lists that will be useful in the loop. The first list, here called results_cv_G_BLUP and, contains the results for each fold assignation that we built in the previous step. The second GEBVS_G_BLUP contains the GEBVs.
Then, we will construct the loop. Each iteration will assign NA for a different fold, and we will use the other folds to predict the missing values. Note that the folds vary for each repetition and trait.
Set up parallel processing. Define and run multiple models to get the GEBVs ATTENTION: This process is time-consuming.
# Planejar o processamento em várias sessões para paralelização
plan(multisession)
# Iniciar uma lista para armazenar os resultados
results_list <-
future_map(traits, .options = furrr_options(seed = 100), function(j) {
# Pré-processamento dos dados
pheno2 <- pheno %>%
select(ID_Clone, all_of(j)) %>%
na.omit() %>%
ungroup() %>%
filter(ID_Clone %in% rownames(A)) %>%
mutate(ID = factor(1:nrow(.)),
IDD_Clone = ID_Clone) %>%
droplevels()
# Filtrar as linhas de A e D com base em pheno2$ID_Clone
A1 <-
A[rownames(A) %in% pheno2$ID_Clone, rownames(A) %in% pheno2$ID_Clone]
D1 <-
D[rownames(D) %in% pheno2$ID_Clone, rownames(D) %in% pheno2$ID_Clone]
#Semente para reprodução
set.seed(100)
# Listas das folds
fold.list <- lapply(1:nrept, function(a) {
folds <- cvFolds(nlevels(pheno2$ID),
type = "random",
K = nfolds)
split(folds$subsets, f = folds$which)
})
# Usar future_map_dfr para criar dobras cruzadas em paralelo
future_map_dfr(1:length(fold.list), function(z) {
for (i in 1:nfolds) {
# Conjunto de treinamento
train_data <- pheno2
# Conjunto de validação
train_data[train_data$ID %in% fold.list[[z]][[i]], j] <- NA
# Fitting model
fixed <- formula(paste(j, " ~ 1"))
GBLUP_D <-
sommer::mmer(
fixed,
random = ~ sommer::vsr(ID_Clone, Gu = A1) +
sommer::vsr(IDD_Clone, Gu = D1),
data = train_data,
rcov = ~ units
)
# GETGV
Pred <-
data.frame(
AD = GBLUP_D$U$`u:ID_Clone`[[j]],
DOM = GBLUP_D$U$`u:IDD_Clone`[[j]],
Yhat = c(GBLUP_D$U$`u:ID_Clone`[[j]] +
GBLUP_D$U$`u:IDD_Clone`[[j]]),
ID = train_data$ID,
ID_Clone = train_data$ID_Clone
) %>%
filter(ID %in% fold.list[[z]][[i]])
result1 <-
tibble(
AD = Pred$AD,
DOM = Pred$DOM,
GEBV = Pred$Yhat,
ID = Pred$ID,
ID_Clone = Pred$ID_Clone,
Trait = j,
rep = z,
fold = i
)
# Resultados da previsão
if (i == 1) {
result <- result1
} else {
result <- rbind(result, result1)
}
}
#Ordenando os resultados de acordo com o ID
result <- result[order(result$ID, decreasing = F),]
# Resultados da validação cruzada
result_cv <- tibble(
Trait = j,
rep = z,
Log = all(result$ID == pheno2$ID),
Ac = round(cor(result$GEBV, pheno2[[j]], use = "na.or.complete"), 3),
MSPE = round(mean((
result$GEBV - pheno2[[j]]
) ^ 2, na.rm = TRUE), 3),
result = list(result)
)
})
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1 -151.828 14:48:3 1 0
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3 -150.934 14:48:3 1 0
4 -150.865 14:48:3 1 0
5 -150.859 14:48:4 2 0
6 -150.858 14:48:4 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.866 14:48:5 1 1
2 -154.56 14:48:5 1 0
3 -154.288 14:48:5 1 1
4 -154.217 14:48:5 1 1
5 -154.194 14:48:6 2 1
6 -154.191 14:48:6 2 1
7 -154.191 14:48:6 2 1
iteration LogLik wall cpu(sec) restrained
1 -156.351 14:48:7 0 0
2 -155.331 14:48:7 0 1
3 -155.148 14:48:7 0 0
4 -155.13 14:48:8 1 0
5 -155.124 14:48:8 1 0
6 -155.122 14:48:8 1 0
7 -155.121 14:48:8 1 0
iteration LogLik wall cpu(sec) restrained
1 -147.229 14:48:9 0 0
2 -147.051 14:48:9 0 0
3 -146.939 14:48:9 0 0
4 -146.898 14:48:9 0 0
5 -146.891 14:48:10 1 0
6 -146.89 14:48:10 1 0
7 -146.89 14:48:10 1 0
iteration LogLik wall cpu(sec) restrained
1 -147.443 14:48:10 0 0
2 -147.431 14:48:11 1 0
3 -147.425 14:48:11 1 0
4 -147.422 14:48:11 1 0
5 -147.421 14:48:11 1 0
iteration LogLik wall cpu(sec) restrained
1 -142.494 14:48:12 1 0
2 -141.132 14:48:12 1 0
3 -140.479 14:48:12 1 0
4 -140.226 14:48:12 1 0
5 -140.176 14:48:12 1 0
6 -140.167 14:48:12 1 0
7 -140.165 14:48:13 2 0
8 -140.165 14:48:13 2 0
iteration LogLik wall cpu(sec) restrained
1 -143.819 14:48:13 0 0
2 -143.106 14:48:13 0 0
3 -142.872 14:48:13 0 0
4 -142.81 14:48:14 1 0
5 -142.803 14:48:14 1 0
6 -142.803 14:48:14 1 0
iteration LogLik wall cpu(sec) restrained
1 -142.614 14:48:14 0 0
2 -141.363 14:48:14 0 0
3 -140.272 14:48:15 1 0
4 -139.649 14:48:15 1 0
5 -139.467 14:48:15 1 0
6 -139.422 14:48:15 1 0
7 -139.411 14:48:15 1 0
8 -139.409 14:48:15 1 0
9 -139.408 14:48:16 2 0
iteration LogLik wall cpu(sec) restrained
1 -143.809 14:48:16 0 0
2 -142.942 14:48:16 0 0
3 -142.851 14:48:16 0 0
4 -142.848 14:48:16 0 0
5 -142.847 14:48:17 1 0
iteration LogLik wall cpu(sec) restrained
1 -143.831 14:48:17 0 0
2 -143.135 14:48:17 0 0
3 -142.861 14:48:17 0 0
4 -142.782 14:48:18 1 0
5 -142.77 14:48:18 1 0
6 -142.769 14:48:18 1 0
7 -142.768 14:48:18 1 0
iteration LogLik wall cpu(sec) restrained
1 -142.325 14:48:19 1 0
2 -141.71 14:48:19 1 0
3 -141.382 14:48:19 1 0
4 -141.285 14:48:19 1 0
5 -141.274 14:48:19 1 0
6 -141.273 14:48:19 1 0
7 -141.273 14:48:19 1 0
iteration LogLik wall cpu(sec) restrained
1 -145.957 14:48:20 0 0
2 -145.141 14:48:20 0 0
3 -144.457 14:48:20 0 0
4 -144.081 14:48:20 0 0
5 -143.976 14:48:20 0 0
6 -143.95 14:48:21 1 0
7 -143.945 14:48:21 1 0
8 -143.943 14:48:21 1 0
9 -143.943 14:48:21 1 0
iteration LogLik wall cpu(sec) restrained
1 -148.153 14:48:22 1 0
2 -148.056 14:48:22 1 0
3 -148.013 14:48:22 1 0
4 -147.991 14:48:22 1 0
5 -147.984 14:48:22 1 0
6 -147.982 14:48:22 1 0
7 -147.982 14:48:22 1 0
iteration LogLik wall cpu(sec) restrained
1 -145.158 14:48:23 0 0
2 -144.491 14:48:23 0 0
3 -144.403 14:48:23 0 0
4 -144.398 14:48:23 0 0
5 -144.398 14:48:23 0 0
iteration LogLik wall cpu(sec) restrained
1 -146.208 14:48:24 0 0
2 -145.492 14:48:24 0 0
3 -144.869 14:48:24 0 0
4 -144.505 14:48:24 0 0
5 -144.392 14:48:25 1 0
6 -144.361 14:48:25 1 0
7 -144.353 14:48:25 1 0
8 -144.351 14:48:25 1 0
9 -144.351 14:48:25 1 0
iteration LogLik wall cpu(sec) restrained
1 -144.227 14:48:25 0 0
2 -143.605 14:48:26 1 0
3 -143.192 14:48:26 1 0
4 -143.024 14:48:26 1 0
5 -142.993 14:48:26 1 0
6 -142.988 14:48:26 1 0
7 -142.987 14:48:26 1 0
iteration LogLik wall cpu(sec) restrained
1 -144.513 14:48:27 0 0
2 -143.845 14:48:27 0 0
3 -143.41 14:48:27 0 0
4 -143.186 14:48:27 0 0
5 -143.121 14:48:27 0 0
6 -143.103 14:48:27 0 0
7 -143.099 14:48:28 1 0
8 -143.098 14:48:28 1 0
9 -143.097 14:48:28 1 0
iteration LogLik wall cpu(sec) restrained
1 -145.288 14:48:28 0 0
2 -145.17 14:48:28 0 0
3 -145.135 14:48:28 0 0
4 -145.122 14:48:29 1 0
5 -145.12 14:48:29 1 0
6 -145.12 14:48:29 1 0
iteration LogLik wall cpu(sec) restrained
1 -144.26 14:48:29 0 0
2 -143.423 14:48:30 1 0
3 -142.779 14:48:30 1 0
4 -142.476 14:48:30 1 0
5 -142.408 14:48:30 1 0
6 -142.394 14:48:30 1 0
7 -142.391 14:48:30 1 0
8 -142.391 14:48:30 1 0
iteration LogLik wall cpu(sec) restrained
1 -143.936 14:48:31 0 0
2 -143.59 14:48:31 0 0
3 -143.507 14:48:31 0 0
4 -143.487 14:48:31 0 0
5 -143.485 14:48:31 0 0
6 -143.485 14:48:31 0 0
iteration LogLik wall cpu(sec) restrained
1 -143.693 14:48:32 0 0
2 -142.251 14:48:32 0 0
3 -141.804 14:48:32 0 0
4 -141.655 14:48:32 0 0
5 -141.619 14:48:32 0 0
6 -141.61 14:48:33 1 0
7 -141.608 14:48:33 1 0
8 -141.607 14:48:33 1 0
iteration LogLik wall cpu(sec) restrained
1 -144.121 14:48:33 0 0
2 -143.961 14:48:33 0 0
3 -143.929 14:48:34 1 0
4 -143.922 14:48:34 1 0
5 -143.921 14:48:34 1 0
iteration LogLik wall cpu(sec) restrained
1 -146.594 14:48:34 0 0
2 -146.164 14:48:35 1 0
3 -145.864 14:48:35 1 0
4 -145.736 14:48:35 1 0
5 -145.709 14:48:35 1 0
6 -145.703 14:48:35 1 0
7 -145.702 14:48:35 1 0
8 -145.702 14:48:35 1 0
iteration LogLik wall cpu(sec) restrained
1 -145.615 14:48:36 0 0
2 -144.926 14:48:36 0 0
3 -144.43 14:48:36 0 0
4 -144.172 14:48:36 0 0
5 -144.106 14:48:36 0 0
6 -144.091 14:48:37 1 0
7 -144.088 14:48:37 1 0
8 -144.088 14:48:37 1 0
iteration LogLik wall cpu(sec) restrained
1 -144.421 14:48:37 0 0
2 -143.823 14:48:37 0 0
3 -143.666 14:48:37 0 0
4 -143.594 14:48:38 1 0
5 -143.57 14:48:38 1 0
6 -143.562 14:48:38 1 0
7 -143.56 14:48:38 1 0
8 -143.559 14:48:38 1 0
iteration LogLik wall cpu(sec) restrained
1 -144.739 14:48:39 1 0
2 -144.667 14:48:39 1 0
3 -144.622 14:48:39 1 0
4 -144.606 14:48:39 1 0
5 -144.603 14:48:39 1 0
6 -144.602 14:48:39 1 0
iteration LogLik wall cpu(sec) restrained
1 -145.703 14:48:40 0 0
2 -144.697 14:48:40 0 0
3 -144.058 14:48:40 0 0
4 -143.811 14:48:40 0 0
5 -143.767 14:48:40 0 0
6 -143.761 14:48:41 1 0
7 -143.76 14:48:41 1 0
8 -143.759 14:48:41 1 0
iteration LogLik wall cpu(sec) restrained
1 -143.517 14:48:41 0 0
2 -143.327 14:48:41 0 0
3 -143.301 14:48:42 1 0
4 -143.297 14:48:42 1 0
5 -143.296 14:48:42 1 0
iteration LogLik wall cpu(sec) restrained
1 -155.443 14:47:16 1 0
2 -155.429 14:47:16 1 0
3 -155.426 14:47:16 1 0
4 -155.426 14:47:16 1 0
iteration LogLik wall cpu(sec) restrained
1 -142.753 14:47:17 0 0
2 -141.999 14:47:18 1 0
3 -141.954 14:47:18 1 0
4 -141.954 14:47:18 1 0
iteration LogLik wall cpu(sec) restrained
1 -149.775 14:47:19 0 0
2 -149.541 14:47:19 0 0
3 -149.431 14:47:19 0 0
4 -149.391 14:47:20 1 0
5 -149.383 14:47:20 1 0
6 -149.382 14:47:20 1 0
7 -149.381 14:47:20 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.838 14:47:21 0 0
2 -151.741 14:47:21 0 0
3 -151.701 14:47:22 1 0
4 -151.691 14:47:22 1 0
5 -151.689 14:47:22 1 0
6 -151.689 14:47:22 1 0
iteration LogLik wall cpu(sec) restrained
1 -146.22 14:47:23 0 0
2 -145.232 14:47:23 0 0
3 -144.504 14:47:24 1 0
4 -144.143 14:47:24 1 0
5 -144.048 14:47:24 1 0
6 -144.024 14:47:24 1 0
7 -144.019 14:47:25 2 0
8 -144.017 14:47:25 2 0
9 -144.017 14:47:25 2 0
iteration LogLik wall cpu(sec) restrained
1 -145.3 14:47:26 0 0
2 -144.399 14:47:27 1 0
3 -143.905 14:47:27 1 0
4 -143.738 14:47:27 1 0
5 -143.712 14:47:27 1 0
6 -143.708 14:47:28 2 0
7 -143.708 14:47:28 2 0
iteration LogLik wall cpu(sec) restrained
1 -146.968 14:47:29 1 0
2 -146.668 14:47:29 1 0
3 -146.64 14:47:29 1 0
4 -146.635 14:47:30 2 0
5 -146.634 14:47:30 2 0
iteration LogLik wall cpu(sec) restrained
1 -147.768 14:47:31 0 0
2 -147.346 14:47:31 0 0
3 -147.153 14:47:31 0 0
4 -147.097 14:47:32 1 0
5 -147.089 14:47:32 1 0
6 -147.088 14:47:32 1 0
7 -147.088 14:47:33 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.168 14:47:33 0 0
2 -152.149 14:47:34 1 0
3 -152.138 14:47:34 1 0
4 -152.133 14:47:34 1 0
5 -152.132 14:47:34 1 0
6 -152.132 14:47:35 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.185 14:47:35 0 0
2 -151.869 14:47:36 1 0
3 -151.686 14:47:36 1 1
4 -151.641 14:47:36 1 1
5 -151.606 14:47:36 1 1
6 -151.601 14:47:37 2 1
7 -151.6 14:47:37 2 1
iteration LogLik wall cpu(sec) restrained
1 -144.555 14:47:38 0 0
2 -143.893 14:47:38 0 0
3 -143.597 14:47:39 1 0
4 -143.533 14:47:39 1 0
5 -143.528 14:47:39 1 0
6 -143.528 14:47:39 1 0
iteration LogLik wall cpu(sec) restrained
1 -148.813 14:47:40 0 0
2 -148.737 14:47:41 1 0
3 -148.722 14:47:41 1 0
4 -148.721 14:47:41 1 0
5 -148.721 14:47:41 1 0
iteration LogLik wall cpu(sec) restrained
1 -152.933 14:47:42 0 0
2 -152.644 14:47:43 1 0
3 -152.55 14:47:43 1 0
4 -152.525 14:47:43 1 0
5 -152.52 14:47:43 1 0
6 -152.519 14:47:44 2 0
7 -152.519 14:47:44 2 0
iteration LogLik wall cpu(sec) restrained
1 -149.015 14:47:44 0 0
2 -148.889 14:47:45 1 0
3 -148.809 14:47:45 1 0
4 -148.773 14:47:45 1 0
5 -148.763 14:47:46 2 0
6 -148.761 14:47:46 2 0
7 -148.76 14:47:46 2 0
iteration LogLik wall cpu(sec) restrained
1 -147.989 14:47:47 0 0
2 -147.612 14:47:47 0 0
3 -147.428 14:47:48 1 0
4 -147.382 14:47:48 1 0
5 -147.378 14:47:48 1 0
6 -147.377 14:47:49 2 0
iteration LogLik wall cpu(sec) restrained
1 -145.707 14:47:49 0 0
2 -145.298 14:47:50 1 0
3 -145.199 14:47:50 1 0
4 -145.179 14:47:50 1 0
5 -145.176 14:47:50 1 0
6 -145.175 14:47:51 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.444 14:47:52 1 0
2 -152.266 14:47:52 1 0
3 -152.196 14:47:52 1 0
4 -152.171 14:47:52 1 0
5 -152.166 14:47:53 2 0
6 -152.165 14:47:53 2 0
iteration LogLik wall cpu(sec) restrained
1 -148.232 14:47:54 1 0
2 -147.694 14:47:54 1 0
3 -147.337 14:47:54 1 0
4 -147.184 14:47:54 1 0
5 -147.15 14:47:55 2 0
6 -147.143 14:47:55 2 0
7 -147.142 14:47:55 2 0
8 -147.141 14:47:55 2 0
iteration LogLik wall cpu(sec) restrained
1 -147.955 14:47:56 0 0
2 -147.378 14:47:56 0 0
3 -147.046 14:47:57 1 0
4 -146.938 14:47:57 1 0
5 -146.923 14:47:57 1 0
6 -146.921 14:47:57 1 0
7 -146.92 14:47:57 1 0
iteration LogLik wall cpu(sec) restrained
1 -149.545 14:47:58 0 0
2 -149.401 14:47:59 1 0
3 -149.356 14:47:59 1 0
4 -149.348 14:47:59 1 0
5 -149.347 14:47:59 1 0
iteration LogLik wall cpu(sec) restrained
1 -147.29 14:48:0 0 0
2 -147.062 14:48:0 0 0
3 -146.961 14:48:1 1 0
4 -146.929 14:48:1 1 0
5 -146.925 14:48:1 1 0
6 -146.924 14:48:1 1 0
iteration LogLik wall cpu(sec) restrained
1 -144.657 14:48:2 0 0
2 -143.567 14:48:2 0 0
3 -143.114 14:48:3 1 0
4 -142.968 14:48:3 1 0
5 -142.941 14:48:3 1 0
6 -142.936 14:48:4 2 0
7 -142.935 14:48:4 2 0
iteration LogLik wall cpu(sec) restrained
1 -148.265 14:48:5 1 0
2 -148.048 14:48:5 1 0
3 -147.935 14:48:5 1 0
4 -147.903 14:48:6 2 0
5 -147.899 14:48:6 2 0
6 -147.898 14:48:6 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.563 14:48:7 0 0
2 -152.266 14:48:7 0 0
3 -152.136 14:48:7 0 0
4 -152.098 14:48:7 0 0
5 -152.091 14:48:8 1 0
6 -152.089 14:48:8 1 0
7 -152.089 14:48:8 1 0
iteration LogLik wall cpu(sec) restrained
1 -152.362 14:48:9 0 0
2 -152.293 14:48:9 0 0
3 -152.286 14:48:9 0 0
4 -152.284 14:48:10 1 0
5 -152.283 14:48:10 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.878 14:47:16 0 1
2 -117.912 14:47:16 0 1
3 -117.25 14:47:16 0 1
4 -117.098 14:47:16 0 1
5 -117.085 14:47:16 0 1
6 -117.085 14:47:16 0 1
iteration LogLik wall cpu(sec) restrained
1 -119.576 14:47:17 0 0
2 -118.118 14:47:17 0 1
3 -118.075 14:47:17 0 1
4 -118.065 14:47:17 0 1
5 -118.064 14:47:17 0 1
6 -118.064 14:47:17 0 1
iteration LogLik wall cpu(sec) restrained
1 -115.76 14:47:18 1 1
2 -114.673 14:47:18 1 1
3 -113.903 14:47:18 1 1
4 -113.706 14:47:18 1 1
5 -113.684 14:47:18 1 1
6 -113.681 14:47:18 1 1
7 -113.681 14:47:18 1 1
iteration LogLik wall cpu(sec) restrained
1 -121.075 14:47:18 0 1
2 -119.105 14:47:19 1 1
3 -118.684 14:47:19 1 1
4 -118.618 14:47:19 1 1
5 -118.615 14:47:19 1 1
6 -118.615 14:47:19 1 1
iteration LogLik wall cpu(sec) restrained
1 -117.539 14:47:19 0 1
2 -116.852 14:47:19 0 1
3 -116.1 14:47:20 1 1
4 -115.713 14:47:20 1 1
5 -115.597 14:47:20 1 1
6 -115.563 14:47:20 1 1
7 -115.553 14:47:20 1 1
8 -115.551 14:47:20 1 1
9 -115.55 14:47:20 1 1
iteration LogLik wall cpu(sec) restrained
1 -120.059 14:47:20 0 0
2 -118.502 14:47:21 1 1
3 -118.193 14:47:21 1 1
4 -118.186 14:47:21 1 1
5 -118.186 14:47:21 1 1
iteration LogLik wall cpu(sec) restrained
1 -119.951 14:47:21 0 1
2 -118.948 14:47:21 0 1
3 -118.487 14:47:21 0 1
4 -118.343 14:47:22 1 1
5 -118.321 14:47:22 1 1
6 -118.317 14:47:22 1 1
7 -118.317 14:47:22 1 1
iteration LogLik wall cpu(sec) restrained
1 -118.047 14:47:22 0 0
2 -116.737 14:47:22 0 1
3 -116.621 14:47:22 0 1
4 -116.594 14:47:22 0 1
5 -116.589 14:47:23 1 1
6 -116.588 14:47:23 1 1
7 -116.588 14:47:23 1 1
iteration LogLik wall cpu(sec) restrained
1 -116.273 14:47:23 0 1
2 -115.049 14:47:23 0 1
3 -114.23 14:47:23 0 1
4 -114.04 14:47:23 0 1
5 -114.021 14:47:24 1 1
6 -114.019 14:47:24 1 1
7 -114.019 14:47:24 1 1
iteration LogLik wall cpu(sec) restrained
1 -117.004 14:47:24 0 1
2 -115.455 14:47:24 0 1
3 -114.871 14:47:24 0 1
4 -114.671 14:47:25 1 1
5 -114.631 14:47:25 1 1
6 -114.622 14:47:25 1 1
7 -114.62 14:47:25 1 1
8 -114.62 14:47:25 1 1
iteration LogLik wall cpu(sec) restrained
1 -123.498 14:47:25 0 0
2 -121.841 14:47:25 0 1
3 -121.38 14:47:26 1 1
4 -121.337 14:47:26 1 1
5 -121.332 14:47:26 1 1
6 -121.331 14:47:26 1 1
iteration LogLik wall cpu(sec) restrained
1 -116.637 14:47:26 0 0
2 -115.578 14:47:26 0 1
3 -115.366 14:47:26 0 1
4 -115.261 14:47:27 1 1
5 -115.238 14:47:27 1 1
6 -115.232 14:47:27 1 1
7 -115.231 14:47:27 1 1
8 -115.231 14:47:27 1 1
iteration LogLik wall cpu(sec) restrained
1 -119.734 14:47:27 0 1
2 -117.928 14:47:27 0 1
3 -117.457 14:47:28 1 1
4 -117.296 14:47:28 1 1
5 -117.269 14:47:28 1 1
6 -117.264 14:47:28 1 1
7 -117.263 14:47:28 1 1
iteration LogLik wall cpu(sec) restrained
1 -117.251 14:47:28 0 1
2 -115.89 14:47:28 0 1
3 -115.216 14:47:29 1 1
4 -115.107 14:47:29 1 1
5 -115.1 14:47:29 1 1
6 -115.099 14:47:29 1 1
iteration LogLik wall cpu(sec) restrained
1 -111.567 14:47:29 0 0
2 -109.074 14:47:30 1 1
3 -108.546 14:47:30 1 1
4 -108.328 14:47:30 1 1
5 -108.28 14:47:30 1 1
6 -108.27 14:47:30 1 1
7 -108.268 14:47:30 1 1
8 -108.268 14:47:30 1 1
iteration LogLik wall cpu(sec) restrained
1 -117.771 14:47:31 1 1
2 -117.007 14:47:31 1 1
3 -116.304 14:47:31 1 1
4 -116.203 14:47:31 1 1
5 -116.198 14:47:31 1 1
6 -116.198 14:47:31 1 1
iteration LogLik wall cpu(sec) restrained
1 -118.002 14:47:32 1 1
2 -116.699 14:47:32 1 1
3 -116.243 14:47:32 1 1
4 -116.103 14:47:32 1 1
5 -116.079 14:47:32 1 1
6 -116.075 14:47:32 1 1
7 -116.074 14:47:32 1 1
iteration LogLik wall cpu(sec) restrained
1 -120.285 14:47:33 0 1
2 -119.063 14:47:33 0 1
3 -118.681 14:47:33 0 1
4 -118.515 14:47:33 0 1
5 -118.476 14:47:33 0 1
6 -118.467 14:47:33 0 1
7 -118.465 14:47:33 0 1
8 -118.465 14:47:33 0 1
iteration LogLik wall cpu(sec) restrained
1 -118.113 14:47:34 0 0
2 -116.867 14:47:34 0 1
3 -116.783 14:47:34 0 1
4 -116.78 14:47:34 0 1
5 -116.78 14:47:34 0 1
iteration LogLik wall cpu(sec) restrained
1 -118.076 14:47:34 0 1
2 -116.625 14:47:35 1 1
3 -115.876 14:47:35 1 1
4 -115.749 14:47:35 1 1
5 -115.743 14:47:35 1 1
6 -115.743 14:47:35 1 1
iteration LogLik wall cpu(sec) restrained
1 -119.813 14:47:35 0 1
2 -118.719 14:47:35 0 1
3 -118.338 14:47:36 1 1
4 -118.228 14:47:36 1 1
5 -118.212 14:47:36 1 1
6 -118.21 14:47:36 1 1
7 -118.21 14:47:36 1 1
iteration LogLik wall cpu(sec) restrained
1 -117.368 14:47:36 0 0
2 -116.481 14:47:36 0 1
3 -116.337 14:47:37 1 1
4 -116.337 14:47:37 1 1
iteration LogLik wall cpu(sec) restrained
1 -116.735 14:47:37 0 1
2 -115.175 14:47:37 0 1
3 -114.162 14:47:37 0 1
4 -113.805 14:47:37 0 1
5 -113.746 14:47:37 0 1
6 -113.737 14:47:38 1 1
7 -113.735 14:47:38 1 1
8 -113.735 14:47:38 1 1
iteration LogLik wall cpu(sec) restrained
1 -115.889 14:47:38 0 0
2 -114.343 14:47:38 0 1
3 -114.22 14:47:38 0 1
4 -114.186 14:47:38 0 1
5 -114.181 14:47:39 1 1
6 -114.18 14:47:39 1 1
iteration LogLik wall cpu(sec) restrained
1 -121.284 14:47:39 0 1
2 -119.273 14:47:39 0 1
3 -118.975 14:47:39 0 1
4 -118.908 14:47:39 0 1
5 -118.901 14:47:39 0 1
6 -118.9 14:47:40 1 1
iteration LogLik wall cpu(sec) restrained
1 -110.09 14:47:40 0 0
2 -108.813 14:47:40 0 0
3 -108.33 14:47:40 0 0
4 -108.121 14:47:40 0 0
5 -108.046 14:47:40 0 0
6 -108.017 14:47:41 1 0
7 -108.006 14:47:41 1 0
8 -108.003 14:47:41 1 0
9 -108.002 14:47:41 1 0
10 -108.001 14:47:41 1 0
iteration LogLik wall cpu(sec) restrained
1 -106.737 14:47:41 0 0
2 -105.438 14:47:41 0 0
3 -104.93 14:47:42 1 0
4 -104.715 14:47:42 1 0
5 -104.672 14:47:42 1 0
6 -104.665 14:47:42 1 0
7 -104.663 14:47:42 1 0
8 -104.663 14:47:42 1 0
iteration LogLik wall cpu(sec) restrained
1 -111.086 14:47:43 1 0
2 -110.938 14:47:43 1 0
3 -110.836 14:47:43 1 0
4 -110.791 14:47:43 1 0
5 -110.781 14:47:43 1 0
6 -110.779 14:47:43 1 0
7 -110.779 14:47:43 1 0
iteration LogLik wall cpu(sec) restrained
1 -108.09 14:47:44 1 0
2 -107.415 14:47:44 1 0
3 -107.368 14:47:44 1 0
4 -107.357 14:47:44 1 0
5 -107.355 14:47:44 1 0
6 -107.355 14:47:44 1 0
iteration LogLik wall cpu(sec) restrained
1 -109.392 14:47:44 0 0
2 -108.826 14:47:44 0 0
3 -108.585 14:47:45 1 0
4 -108.474 14:47:45 1 0
5 -108.446 14:47:45 1 0
6 -108.439 14:47:45 1 0
7 -108.438 14:47:45 1 0
8 -108.437 14:47:45 1 0
iteration LogLik wall cpu(sec) restrained
1 -109.708 14:47:45 0 0
2 -109.478 14:47:46 1 0
3 -109.39 14:47:46 1 0
4 -109.344 14:47:46 1 0
5 -109.33 14:47:46 1 0
6 -109.326 14:47:46 1 0
7 -109.325 14:47:46 1 0
8 -109.324 14:47:46 1 0
iteration LogLik wall cpu(sec) restrained
1 -107.357 14:47:47 1 0
2 -105.38 14:47:47 1 0
3 -104.846 14:47:47 1 0
4 -104.643 14:47:47 1 0
5 -104.581 14:47:47 1 0
6 -104.561 14:47:47 1 0
7 -104.556 14:47:47 1 0
8 -104.554 14:47:47 1 0
9 -104.553 14:47:47 1 0
iteration LogLik wall cpu(sec) restrained
1 -110.589 14:47:48 0 0
2 -110.312 14:47:48 0 0
3 -110.249 14:47:48 0 0
4 -110.217 14:47:48 0 0
5 -110.208 14:47:48 0 0
6 -110.206 14:47:48 0 0
7 -110.205 14:47:48 0 0
iteration LogLik wall cpu(sec) restrained
1 -108.479 14:47:49 0 0
2 -107.855 14:47:49 0 0
3 -107.465 14:47:49 0 0
4 -107.292 14:47:49 0 0
5 -107.254 14:47:49 0 0
6 -107.247 14:47:49 0 0
7 -107.245 14:47:49 0 0
8 -107.245 14:47:50 1 0
iteration LogLik wall cpu(sec) restrained
1 -109.482 14:47:50 0 0
2 -108.149 14:47:50 0 0
3 -107.508 14:47:50 0 0
4 -107.216 14:47:50 0 0
5 -107.145 14:47:50 0 0
6 -107.131 14:47:50 0 0
7 -107.128 14:47:51 1 0
8 -107.127 14:47:51 1 0
iteration LogLik wall cpu(sec) restrained
1 -110.24 14:47:51 0 0
2 -109.629 14:47:51 0 0
3 -109.274 14:47:51 0 0
4 -109.083 14:47:51 0 0
5 -109.022 14:47:51 0 0
6 -109.006 14:47:51 0 0
7 -109.001 14:47:52 1 0
8 -109 14:47:52 1 0
9 -109 14:47:52 1 0
iteration LogLik wall cpu(sec) restrained
1 -107.428 14:47:52 0 0
2 -106.211 14:47:52 0 0
3 -105.357 14:47:52 0 0
4 -104.946 14:47:52 0 0
5 -104.851 14:47:53 1 0
6 -104.832 14:47:53 1 0
7 -104.828 14:47:53 1 0
8 -104.828 14:47:53 1 0
iteration LogLik wall cpu(sec) restrained
1 -110.252 14:47:53 0 0
2 -109.303 14:47:53 0 0
3 -109.236 14:47:53 0 0
4 -109.213 14:47:53 0 0
5 -109.205 14:47:54 1 0
6 -109.203 14:47:54 1 0
7 -109.202 14:47:54 1 0
iteration LogLik wall cpu(sec) restrained
1 -109.212 14:47:54 0 0
2 -108.406 14:47:54 0 0
3 -108.332 14:47:54 0 0
4 -108.317 14:47:54 0 0
5 -108.314 14:47:55 1 0
6 -108.313 14:47:55 1 0
iteration LogLik wall cpu(sec) restrained
1 -107.903 14:47:55 0 0
2 -107.147 14:47:55 0 0
3 -106.629 14:47:55 0 0
4 -106.419 14:47:55 0 0
5 -106.382 14:47:55 0 0
6 -106.376 14:47:55 0 0
7 -106.375 14:47:56 1 0
iteration LogLik wall cpu(sec) restrained
1 -106.582 14:47:56 0 0
2 -105.72 14:47:56 0 0
3 -105.535 14:47:56 0 0
4 -105.46 14:47:56 0 0
5 -105.444 14:47:56 0 0
6 -105.44 14:47:56 0 0
7 -105.439 14:47:57 1 0
iteration LogLik wall cpu(sec) restrained
1 -110.512 14:47:57 0 0
2 -110.131 14:47:57 0 0
3 -109.863 14:47:57 0 0
4 -109.743 14:47:57 0 0
5 -109.717 14:47:57 0 0
6 -109.711 14:47:57 0 0
7 -109.71 14:47:57 0 0
8 -109.71 14:47:58 1 0
iteration LogLik wall cpu(sec) restrained
1 -109.792 14:47:58 0 0
2 -109.057 14:47:58 0 0
3 -108.994 14:47:58 0 1
4 -108.99 14:47:58 0 1
5 -108.99 14:47:58 0 1
iteration LogLik wall cpu(sec) restrained
1 -104.581 14:47:59 0 0
2 -102.502 14:47:59 0 0
3 -101.566 14:47:59 0 0
4 -101.077 14:47:59 0 0
5 -100.936 14:47:59 0 0
6 -100.903 14:47:59 0 0
7 -100.897 14:47:59 0 0
8 -100.896 14:47:59 0 0
9 -100.895 14:48:0 1 0
iteration LogLik wall cpu(sec) restrained
1 -113.552 14:48:0 0 0
2 -113.26 14:48:0 0 0
3 -113.119 14:48:0 0 0
4 -113.048 14:48:0 0 0
5 -113.026 14:48:0 0 0
6 -113.019 14:48:0 0 0
7 -113.017 14:48:0 0 0
8 -113.017 14:48:1 1 0
iteration LogLik wall cpu(sec) restrained
1 -107.943 14:48:1 0 0
2 -106.848 14:48:1 0 0
3 -106.042 14:48:1 0 0
4 -105.568 14:48:1 0 0
5 -105.427 14:48:1 0 0
6 -105.392 14:48:2 1 0
7 -105.384 14:48:2 1 0
8 -105.382 14:48:2 1 0
9 -105.382 14:48:2 1 0
iteration LogLik wall cpu(sec) restrained
1 -110.202 14:48:2 0 0
2 -109.537 14:48:2 0 0
3 -109.419 14:48:2 0 0
4 -109.389 14:48:3 1 0
5 -109.38 14:48:3 1 0
6 -109.377 14:48:3 1 0
7 -109.376 14:48:3 1 0
iteration LogLik wall cpu(sec) restrained
1 -107.548 14:48:3 0 0
2 -106.603 14:48:3 0 0
3 -106.509 14:48:4 1 0
4 -106.487 14:48:4 1 0
5 -106.481 14:48:4 1 0
6 -106.479 14:48:4 1 0
7 -106.479 14:48:4 1 0
iteration LogLik wall cpu(sec) restrained
1 -109.442 14:48:4 0 0
2 -108.828 14:48:4 0 0
3 -108.623 14:48:5 1 0
4 -108.529 14:48:5 1 0
5 -108.502 14:48:5 1 0
6 -108.494 14:48:5 1 0
7 -108.492 14:48:5 1 0
8 -108.492 14:48:5 1 0
iteration LogLik wall cpu(sec) restrained
1 -112.523 14:48:5 0 0
2 -112.336 14:48:6 1 0
3 -112.21 14:48:6 1 0
4 -112.158 14:48:6 1 0
5 -112.147 14:48:6 1 0
6 -112.145 14:48:6 1 0
7 -112.145 14:48:6 1 0
iteration LogLik wall cpu(sec) restrained
1 -157.784 14:47:16 0 0
2 -157.255 14:47:17 1 1
3 -157.059 14:47:17 1 1
4 -157.059 14:47:17 1 1
iteration LogLik wall cpu(sec) restrained
1 -151.335 14:47:18 0 0
2 -151.23 14:47:18 0 0
3 -151.189 14:47:19 1 0
4 -151.182 14:47:19 1 0
5 -151.182 14:47:19 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.201 14:47:20 1 0
2 -153.771 14:47:20 1 0
3 -153.567 14:47:20 1 0
4 -153.521 14:47:20 1 0
5 -153.517 14:47:21 2 0
6 -153.517 14:47:21 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.312 14:47:22 1 0
2 -154.253 14:47:22 1 0
3 -154.229 14:47:22 1 0
4 -154.225 14:47:22 1 0
5 -154.224 14:47:23 2 0
iteration LogLik wall cpu(sec) restrained
1 -153.153 14:47:23 0 0
2 -152.838 14:47:24 1 0
3 -152.625 14:47:24 1 0
4 -152.536 14:47:24 1 0
5 -152.517 14:47:25 2 0
6 -152.513 14:47:25 2 0
7 -152.513 14:47:25 2 0
iteration LogLik wall cpu(sec) restrained
1 -153.021 14:47:26 0 0
2 -152.643 14:47:26 0 0
3 -152.42 14:47:27 1 0
4 -152.342 14:47:27 1 0
5 -152.329 14:47:27 1 0
6 -152.327 14:47:27 1 0
7 -152.326 14:47:28 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.933 14:47:28 0 0
2 -156.843 14:47:29 1 0
3 -156.798 14:47:29 1 0
4 -156.786 14:47:29 1 0
5 -156.785 14:47:30 2 0
6 -156.784 14:47:30 2 0
iteration LogLik wall cpu(sec) restrained
1 -149.492 14:47:31 0 0
2 -148.944 14:47:31 0 0
3 -148.679 14:47:31 0 0
4 -148.62 14:47:32 1 0
5 -148.616 14:47:32 1 0
6 -148.615 14:47:32 1 0
iteration LogLik wall cpu(sec) restrained
1 -153.605 14:47:33 0 0
2 -153.471 14:47:34 1 0
3 -153.409 14:47:34 1 0
4 -153.396 14:47:34 1 0
5 -153.395 14:47:34 1 0
iteration LogLik wall cpu(sec) restrained
1 -159.956 14:47:35 0 0
2 -159.764 14:47:35 0 0
3 -159.667 14:47:36 1 0
4 -159.639 14:47:36 1 0
5 -159.634 14:47:36 1 0
6 -159.632 14:47:36 1 0
7 -159.632 14:47:37 2 0
iteration LogLik wall cpu(sec) restrained
1 -149.941 14:47:38 1 0
2 -149.528 14:47:38 1 0
3 -149.345 14:47:38 1 0
4 -149.309 14:47:38 1 0
5 -149.307 14:47:39 2 0
6 -149.306 14:47:39 2 0
iteration LogLik wall cpu(sec) restrained
1 -153.895 14:47:40 0 0
2 -153.854 14:47:40 0 0
3 -153.837 14:47:40 0 0
4 -153.833 14:47:41 1 0
5 -153.833 14:47:41 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.776 14:47:42 1 0
2 -151.282 14:47:42 1 0
3 -151.026 14:47:42 1 0
4 -150.957 14:47:43 2 0
5 -150.95 14:47:43 2 0
6 -150.949 14:47:43 2 0
iteration LogLik wall cpu(sec) restrained
1 -158.297 14:47:44 0 0
2 -158.203 14:47:44 0 0
3 -158.148 14:47:44 0 0
4 -158.126 14:47:45 1 0
5 -158.121 14:47:45 1 0
6 -158.119 14:47:45 1 0
7 -158.119 14:47:45 1 0
iteration LogLik wall cpu(sec) restrained
1 -158.164 14:47:46 0 0
2 -157.695 14:47:47 1 1
3 -157.64 14:47:47 1 1
4 -157.631 14:47:47 1 1
5 -157.629 14:47:47 1 1
6 -157.629 14:47:48 2 1
iteration LogLik wall cpu(sec) restrained
1 -155.639 14:47:49 1 0
2 -155.191 14:47:49 1 1
3 -155.108 14:47:49 1 1
4 -155.07 14:47:49 1 1
5 -155.064 14:47:50 2 1
6 -155.063 14:47:50 2 1
7 -155.062 14:47:50 2 1
iteration LogLik wall cpu(sec) restrained
1 -151.854 14:47:51 0 0
2 -151.543 14:47:51 0 0
3 -151.401 14:47:51 0 0
4 -151.369 14:47:52 1 0
5 -151.367 14:47:52 1 0
6 -151.366 14:47:52 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.31 14:47:53 0 0
2 -154.267 14:47:53 0 0
3 -154.25 14:47:53 0 0
4 -154.247 14:47:54 1 0
5 -154.247 14:47:54 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.596 14:47:55 1 0
2 -154.515 14:47:55 1 0
3 -154.473 14:47:55 1 0
4 -154.46 14:47:55 1 0
5 -154.459 14:47:56 2 0
6 -154.459 14:47:56 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.449 14:47:57 0 0
2 -156.076 14:47:57 0 0
3 -155.941 14:47:57 0 0
4 -155.922 14:47:58 1 0
5 -155.921 14:47:58 1 0
6 -155.92 14:47:58 1 0
iteration LogLik wall cpu(sec) restrained
1 -154.36 14:47:59 0 0
2 -154.294 14:47:59 0 0
3 -154.265 14:47:59 0 0
4 -154.258 14:47:59 0 0
5 -154.257 14:48:0 1 0
iteration LogLik wall cpu(sec) restrained
1 -150.49 14:48:0 0 0
2 -150.086 14:48:1 1 0
3 -149.89 14:48:1 1 0
4 -149.843 14:48:1 1 0
5 -149.838 14:48:2 2 0
6 -149.838 14:48:2 2 0
iteration LogLik wall cpu(sec) restrained
1 -155.008 14:48:3 1 0
2 -154.92 14:48:3 1 0
3 -154.889 14:48:3 1 0
4 -154.885 14:48:4 2 0
5 -154.885 14:48:4 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.905 14:48:5 1 0
2 -154.854 14:48:5 1 0
3 -154.828 14:48:5 1 0
4 -154.821 14:48:5 1 0
5 -154.82 14:48:6 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.89 14:48:7 1 0
2 -154.744 14:48:7 1 0
3 -154.7 14:48:7 1 0
4 -154.697 14:48:7 1 0
5 -154.696 14:48:8 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.507 14:47:17 1 0
2 -154.336 14:47:17 1 0
3 -154.244 14:47:17 1 0
4 -154.209 14:47:18 2 0
5 -154.2 14:47:18 2 0
6 -154.198 14:47:18 2 0
7 -154.197 14:47:18 2 0
iteration LogLik wall cpu(sec) restrained
1 -159.403 14:47:19 0 0
2 -158.866 14:47:19 0 0
3 -158.547 14:47:19 0 0
4 -158.41 14:47:20 1 0
5 -158.369 14:47:20 1 0
6 -158.356 14:47:20 1 0
7 -158.351 14:47:20 1 0
8 -158.35 14:47:21 2 0
9 -158.349 14:47:21 2 0
iteration LogLik wall cpu(sec) restrained
1 -149.011 14:47:22 1 0
2 -148.628 14:47:22 1 0
3 -148.559 14:47:22 1 0
4 -148.552 14:47:22 1 0
5 -148.551 14:47:22 1 0
iteration LogLik wall cpu(sec) restrained
1 -152.219 14:47:23 0 0
2 -151.797 14:47:23 0 0
3 -151.55 14:47:24 1 0
4 -151.465 14:47:24 1 0
5 -151.451 14:47:24 1 0
6 -151.449 14:47:24 1 0
7 -151.448 14:47:25 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.147 14:47:26 1 0
2 -154.02 14:47:26 1 0
3 -153.989 14:47:26 1 0
4 -153.98 14:47:26 1 0
5 -153.977 14:47:27 2 0
6 -153.977 14:47:27 2 0
iteration LogLik wall cpu(sec) restrained
1 -155.424 14:47:28 1 0
2 -155.229 14:47:28 1 0
3 -155.092 14:47:28 1 0
4 -155.018 14:47:29 2 0
5 -154.991 14:47:29 2 0
6 -154.98 14:47:29 2 0
7 -154.975 14:47:29 2 0
8 -154.973 14:47:30 3 0
9 -154.972 14:47:30 3 0
iteration LogLik wall cpu(sec) restrained
1 -152.073 14:47:31 0 0
2 -152.036 14:47:31 0 0
3 -152.025 14:47:32 1 0
4 -152.023 14:47:32 1 0
5 -152.023 14:47:32 1 0
iteration LogLik wall cpu(sec) restrained
1 -155.266 14:47:33 0 0
2 -155.124 14:47:33 0 0
3 -155.053 14:47:33 0 0
4 -155.033 14:47:34 1 0
5 -155.03 14:47:34 1 0
6 -155.029 14:47:34 1 0
iteration LogLik wall cpu(sec) restrained
1 -149.622 14:47:35 0 0
2 -148.677 14:47:35 0 0
3 -147.997 14:47:35 0 0
4 -147.698 14:47:36 1 0
5 -147.638 14:47:36 1 0
6 -147.627 14:47:36 1 0
7 -147.625 14:47:36 1 0
8 -147.625 14:47:37 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.005 14:47:37 0 0
2 -155.902 14:47:38 1 0
3 -155.856 14:47:38 1 0
4 -155.842 14:47:38 1 0
5 -155.839 14:47:39 2 0
6 -155.838 14:47:39 2 0
iteration LogLik wall cpu(sec) restrained
1 -150.796 14:47:40 0 0
2 -150.495 14:47:40 0 0
3 -150.419 14:47:40 0 0
4 -150.412 14:47:41 1 0
5 -150.412 14:47:41 1 0
iteration LogLik wall cpu(sec) restrained
1 -158.195 14:47:42 1 0
2 -157.97 14:47:42 1 0
3 -157.803 14:47:42 1 0
4 -157.707 14:47:43 2 0
5 -157.67 14:47:43 2 0
6 -157.654 14:47:43 2 0
7 -157.647 14:47:43 2 0
8 -157.644 14:47:43 2 0
9 -157.642 14:47:44 3 0
10 -157.642 14:47:44 3 0
iteration LogLik wall cpu(sec) restrained
1 -153.359 14:47:45 1 0
2 -153.28 14:47:45 1 0
3 -153.258 14:47:45 1 0
4 -153.254 14:47:46 2 0
5 -153.254 14:47:46 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.553 14:47:47 1 0
2 -154.527 14:47:47 1 0
3 -154.52 14:47:47 1 0
4 -154.519 14:47:47 1 0
5 -154.519 14:47:48 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.415 14:47:49 1 0
2 -152.329 14:47:49 1 0
3 -152.272 14:47:49 1 0
4 -152.249 14:47:49 1 0
5 -152.244 14:47:49 1 0
6 -152.243 14:47:50 2 0
iteration LogLik wall cpu(sec) restrained
1 -154.474 14:47:51 1 0
2 -154.397 14:47:51 1 0
3 -154.36 14:47:51 1 0
4 -154.347 14:47:51 1 0
5 -154.344 14:47:52 2 0
6 -154.343 14:47:52 2 0
iteration LogLik wall cpu(sec) restrained
1 -156.712 14:47:53 1 0
2 -156.436 14:47:53 1 0
3 -156.334 14:47:53 1 0
4 -156.321 14:47:53 1 0
5 -156.319 14:47:54 2 0
6 -156.319 14:47:54 2 0
iteration LogLik wall cpu(sec) restrained
1 -151.524 14:47:55 1 0
2 -150.753 14:47:55 1 0
3 -150.464 14:47:55 1 1
4 -150.432 14:47:55 1 1
5 -150.419 14:47:55 1 1
6 -150.417 14:47:56 2 1
7 -150.417 14:47:56 2 1
iteration LogLik wall cpu(sec) restrained
1 -152.478 14:47:57 1 0
2 -152.105 14:47:57 1 0
3 -151.984 14:47:57 1 0
4 -151.951 14:47:57 1 0
5 -151.944 14:47:58 2 0
6 -151.943 14:47:58 2 0
7 -151.943 14:47:58 2 0
iteration LogLik wall cpu(sec) restrained
1 -153.249 14:47:59 1 0
2 -152.904 14:47:59 1 0
3 -152.844 14:47:59 1 0
4 -152.827 14:47:59 1 0
5 -152.825 14:48:0 2 0
6 -152.825 14:48:0 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.802 14:48:1 1 0
2 -152.535 14:48:1 1 0
3 -152.461 14:48:1 1 0
4 -152.449 14:48:2 2 0
5 -152.447 14:48:2 2 0
6 -152.446 14:48:2 2 0
iteration LogLik wall cpu(sec) restrained
1 -158.214 14:48:3 0 0
2 -157.308 14:48:3 0 1
3 -156.755 14:48:3 0 1
4 -156.7 14:48:4 1 1
5 -156.694 14:48:4 1 1
6 -156.693 14:48:4 1 1
iteration LogLik wall cpu(sec) restrained
1 -154.404 14:48:5 0 0
2 -154.305 14:48:5 0 0
3 -154.248 14:48:6 1 0
4 -154.223 14:48:6 1 0
5 -154.217 14:48:6 1 0
6 -154.215 14:48:6 1 0
7 -154.214 14:48:7 2 0
iteration LogLik wall cpu(sec) restrained
1 -149.538 14:48:7 0 0
2 -148.72 14:48:7 0 0
3 -148.208 14:48:8 1 0
4 -148.037 14:48:8 1 0
5 -148.014 14:48:8 1 0
6 -148.011 14:48:8 1 0
7 -148.011 14:48:8 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.776 14:48:9 0 0
2 -151.767 14:48:9 0 0
3 -151.763 14:48:9 0 0
4 -151.762 14:48:10 1 0
5 -151.762 14:48:10 1 0
iteration LogLik wall cpu(sec) restrained
1 -118.858 14:47:17 0 1
2 -117.851 14:47:17 0 1
3 -117.195 14:47:17 0 1
4 -117.047 14:47:17 0 1
5 -117.035 14:47:17 0 1
6 -117.034 14:47:17 0 1
iteration LogLik wall cpu(sec) restrained
1 -119.662 14:47:18 0 1
2 -118.628 14:47:18 0 1
3 -118.228 14:47:18 0 1
4 -118.124 14:47:18 0 1
5 -118.112 14:47:18 0 1
6 -118.11 14:47:18 0 1
7 -118.11 14:47:18 0 1
iteration LogLik wall cpu(sec) restrained
1 -115.781 14:47:19 0 1
2 -114.606 14:47:19 0 1
3 -113.837 14:47:19 0 1
4 -113.649 14:47:19 0 1
5 -113.628 14:47:19 0 1
6 -113.626 14:47:19 0 1
7 -113.625 14:47:19 0 1
iteration LogLik wall cpu(sec) restrained
1 -121.09 14:47:20 0 1
2 -119.069 14:47:20 0 1
3 -118.639 14:47:20 0 1
4 -118.573 14:47:20 0 1
5 -118.571 14:47:20 0 1
6 -118.571 14:47:20 0 1
iteration LogLik wall cpu(sec) restrained
1 -117.539 14:47:20 0 1
2 -116.773 14:47:21 1 1
3 -116.025 14:47:21 1 1
4 -115.648 14:47:21 1 1
5 -115.536 14:47:21 1 1
6 -115.504 14:47:21 1 1
7 -115.496 14:47:21 1 1
8 -115.493 14:47:21 1 1
9 -115.492 14:47:21 1 1
iteration LogLik wall cpu(sec) restrained
1 -120.108 14:47:22 0 0
2 -118.558 14:47:22 0 1
3 -118.239 14:47:22 0 1
4 -118.232 14:47:22 0 1
5 -118.232 14:47:22 0 1
iteration LogLik wall cpu(sec) restrained
1 -120.01 14:47:22 0 1
2 -118.933 14:47:22 0 1
3 -118.481 14:47:23 1 1
4 -118.34 14:47:23 1 1
5 -118.318 14:47:23 1 1
6 -118.315 14:47:23 1 1
7 -118.314 14:47:23 1 1
iteration LogLik wall cpu(sec) restrained
1 -118.058 14:47:23 0 0
2 -116.618 14:47:23 0 1
3 -116.546 14:47:24 1 1
4 -116.529 14:47:24 1 1
5 -116.525 14:47:24 1 1
6 -116.524 14:47:24 1 1
iteration LogLik wall cpu(sec) restrained
1 -116.328 14:47:24 0 1
2 -115.048 14:47:24 0 1
3 -114.239 14:47:24 0 1
4 -114.056 14:47:25 1 1
5 -114.039 14:47:25 1 1
6 -114.037 14:47:25 1 1
7 -114.037 14:47:25 1 1
iteration LogLik wall cpu(sec) restrained
1 -117.037 14:47:25 0 1
2 -115.417 14:47:25 0 1
3 -114.836 14:47:26 1 1
4 -114.642 14:47:26 1 1
5 -114.604 14:47:26 1 1
6 -114.596 14:47:26 1 1
7 -114.594 14:47:26 1 1
8 -114.594 14:47:26 1 1
iteration LogLik wall cpu(sec) restrained
1 -123.538 14:47:26 0 0
2 -121.791 14:47:27 1 1
3 -121.372 14:47:27 1 1
4 -121.317 14:47:27 1 1
5 -121.311 14:47:27 1 1
6 -121.311 14:47:27 1 1
iteration LogLik wall cpu(sec) restrained
1 -116.665 14:47:27 0 0
2 -115.505 14:47:27 0 1
3 -115.298 14:47:28 1 1
4 -115.211 14:47:28 1 1
5 -115.192 14:47:28 1 1
6 -115.188 14:47:28 1 1
7 -115.187 14:47:28 1 1
iteration LogLik wall cpu(sec) restrained
1 -119.742 14:47:28 0 1
2 -117.894 14:47:29 1 1
3 -117.427 14:47:29 1 1
4 -117.272 14:47:29 1 1
5 -117.247 14:47:29 1 1
6 -117.243 14:47:29 1 1
7 -117.242 14:47:29 1 1
iteration LogLik wall cpu(sec) restrained
1 -117.312 14:47:30 1 1
2 -115.918 14:47:30 1 1
3 -115.243 14:47:30 1 1
4 -115.138 14:47:30 1 1
5 -115.131 14:47:30 1 1
6 -115.131 14:47:30 1 1
iteration LogLik wall cpu(sec) restrained
1 -111.575 14:47:30 0 1
2 -110.709 14:47:31 1 1
3 -109.1 14:47:31 1 1
4 -108.448 14:47:31 1 1
5 -108.303 14:47:31 1 1
6 -108.273 14:47:31 1 1
7 -108.266 14:47:31 1 1
8 -108.265 14:47:31 1 1
9 -108.265 14:47:31 1 1
iteration LogLik wall cpu(sec) restrained
1 -117.719 14:47:32 0 1
2 -116.899 14:47:32 0 1
3 -116.185 14:47:32 0 1
4 -116.085 14:47:32 0 1
5 -116.081 14:47:32 0 1
6 -116.08 14:47:32 0 1
iteration LogLik wall cpu(sec) restrained
1 -118.027 14:47:33 0 1
2 -116.645 14:47:33 0 1
3 -116.194 14:47:33 0 1
4 -116.059 14:47:33 0 1
5 -116.037 14:47:33 0 1
6 -116.033 14:47:33 0 1
7 -116.032 14:47:33 0 1
iteration LogLik wall cpu(sec) restrained
1 -120.294 14:47:34 0 1
2 -119.057 14:47:34 0 1
3 -118.674 14:47:34 0 1
4 -118.51 14:47:34 0 1
5 -118.472 14:47:34 0 1
6 -118.464 14:47:34 0 1
7 -118.462 14:47:35 1 1
8 -118.461 14:47:35 1 1
iteration LogLik wall cpu(sec) restrained
1 -118.195 14:47:35 0 0
2 -116.849 14:47:35 0 1
3 -116.799 14:47:35 0 1
4 -116.798 14:47:35 0 1
iteration LogLik wall cpu(sec) restrained
1 -118.127 14:47:36 0 1
2 -116.618 14:47:36 0 1
3 -115.873 14:47:36 0 1
4 -115.749 14:47:36 0 1
5 -115.744 14:47:36 0 1
6 -115.743 14:47:36 0 1
iteration LogLik wall cpu(sec) restrained
1 -119.834 14:47:37 1 1
2 -118.716 14:47:37 1 1
3 -118.337 14:47:37 1 1
4 -118.23 14:47:37 1 1
5 -118.215 14:47:37 1 1
6 -118.213 14:47:37 1 1
7 -118.213 14:47:37 1 1
iteration LogLik wall cpu(sec) restrained
1 -117.344 14:47:38 0 0
2 -116.393 14:47:38 0 1
3 -116.262 14:47:38 0 1
4 -116.262 14:47:38 0 1
iteration LogLik wall cpu(sec) restrained
1 -116.739 14:47:38 0 1
2 -115.13 14:47:39 1 1
3 -114.128 14:47:39 1 1
4 -113.779 14:47:39 1 1
5 -113.722 14:47:39 1 1
6 -113.713 14:47:39 1 1
7 -113.712 14:47:39 1 1
8 -113.711 14:47:39 1 1
iteration LogLik wall cpu(sec) restrained
1 -115.908 14:47:40 0 1
2 -115.48 14:47:40 0 1
3 -114.469 14:47:40 0 1
4 -114.155 14:47:40 0 1
5 -114.11 14:47:40 0 1
6 -114.104 14:47:40 0 1
7 -114.103 14:47:40 0 1
iteration LogLik wall cpu(sec) restrained
1 -121.245 14:47:41 1 1
2 -119.175 14:47:41 1 1
3 -118.867 14:47:41 1 1
4 -118.799 14:47:41 1 1
5 -118.793 14:47:41 1 1
6 -118.792 14:47:41 1 1
iteration LogLik wall cpu(sec) restrained
1 -149.064 14:47:42 0 0
2 -148.6 14:47:42 0 0
3 -148.467 14:47:43 1 0
4 -148.459 14:47:43 1 0
5 -148.459 14:47:43 1 0
iteration LogLik wall cpu(sec) restrained
1 -147.695 14:47:44 0 0
2 -147.589 14:47:44 0 0
3 -147.55 14:47:44 0 0
4 -147.543 14:47:44 0 0
5 -147.543 14:47:45 1 0
iteration LogLik wall cpu(sec) restrained
1 -139.052 14:47:46 1 0
2 -138.69 14:47:46 1 0
3 -138.602 14:47:46 1 0
4 -138.595 14:47:46 1 0
5 -138.595 14:47:47 2 0
iteration LogLik wall cpu(sec) restrained
1 -144.478 14:47:47 0 0
2 -144.396 14:47:48 1 0
3 -144.382 14:47:48 1 0
4 -144.382 14:47:48 1 0
iteration LogLik wall cpu(sec) restrained
1 -142.63 14:47:49 0 0
2 -142.069 14:47:49 0 1
3 -142.016 14:47:49 0 1
4 -141.877 14:47:50 1 1
5 -141.876 14:47:50 1 1
6 -141.876 14:47:50 1 1
iteration LogLik wall cpu(sec) restrained
1 -140.492 14:47:51 0 0
2 -140.283 14:47:51 0 0
3 -140.223 14:47:52 1 0
4 -140.216 14:47:52 1 0
5 -140.216 14:47:52 1 0
iteration LogLik wall cpu(sec) restrained
1 -141.688 14:47:53 1 0
2 -141.235 14:47:53 1 0
3 -141.1 14:47:53 1 0
4 -141.087 14:47:53 1 0
5 -141.087 14:47:54 2 0
iteration LogLik wall cpu(sec) restrained
1 -150.799 14:47:54 0 0
2 -150.494 14:47:55 1 0
3 -150.376 14:47:55 1 0
4 -150.359 14:47:55 1 0
5 -150.358 14:47:55 1 0
iteration LogLik wall cpu(sec) restrained
1 -145.05 14:47:56 0 0
2 -144.824 14:47:56 0 0
3 -144.764 14:47:57 1 0
4 -144.758 14:47:57 1 0
5 -144.758 14:47:57 1 0
iteration LogLik wall cpu(sec) restrained
1 -146.669 14:47:58 1 0
2 -146.643 14:47:58 1 0
3 -146.636 14:47:58 1 0
4 -146.635 14:47:58 1 0
iteration LogLik wall cpu(sec) restrained
1 -142.567 14:47:59 0 0
2 -142.373 14:47:59 0 0
3 -142.29 14:48:0 1 0
4 -142.267 14:48:0 1 0
5 -142.264 14:48:0 1 0
6 -142.263 14:48:0 1 0
iteration LogLik wall cpu(sec) restrained
1 -140.993 14:48:1 0 0
2 -140.545 14:48:1 0 0
3 -140.394 14:48:2 1 0
4 -140.374 14:48:2 1 0
5 -140.373 14:48:2 1 0
iteration LogLik wall cpu(sec) restrained
1 -147.783 14:48:3 0 0
2 -147.645 14:48:3 0 0
3 -147.609 14:48:4 1 0
4 -147.607 14:48:4 1 0
5 -147.607 14:48:4 1 0
iteration LogLik wall cpu(sec) restrained
1 -145.067 14:48:5 0 0
2 -144.99 14:48:5 0 0
3 -144.966 14:48:5 0 0
4 -144.962 14:48:6 1 0
5 -144.961 14:48:6 1 0
iteration LogLik wall cpu(sec) restrained
1 -147.936 14:48:7 1 0
2 -147.694 14:48:7 1 0
3 -147.636 14:48:7 1 0
4 -147.632 14:48:7 1 0
5 -147.632 14:48:8 2 0
iteration LogLik wall cpu(sec) restrained
1 -148.808 14:48:8 0 0
2 -148.683 14:48:8 0 0
3 -148.655 14:48:9 1 0
4 -148.654 14:48:9 1 0
5 -148.654 14:48:9 1 0
iteration LogLik wall cpu(sec) restrained
1 -143.909 14:48:10 1 0
2 -143.849 14:48:10 1 0
3 -143.834 14:48:10 1 0
4 -143.832 14:48:10 1 0
5 -143.832 14:48:10 1 0
iteration LogLik wall cpu(sec) restrained
1 -135.304 14:48:11 0 0
2 -134.063 14:48:11 0 0
3 -133.658 14:48:11 0 0
4 -133.611 14:48:11 0 0
5 -133.61 14:48:11 0 0
iteration LogLik wall cpu(sec) restrained
1 -143.23 14:48:12 0 0
2 -143.047 14:48:12 0 0
3 -142.994 14:48:12 0 0
4 -142.988 14:48:12 0 0
5 -142.988 14:48:12 0 0
iteration LogLik wall cpu(sec) restrained
1 -148.537 14:48:13 0 0
2 -148.471 14:48:13 0 0
3 -148.446 14:48:13 0 0
4 -148.443 14:48:13 0 0
5 -148.442 14:48:14 1 0
iteration LogLik wall cpu(sec) restrained
1 -144.79 14:48:14 0 0
2 -144.724 14:48:14 0 0
3 -144.7 14:48:14 0 0
4 -144.695 14:48:15 1 0
5 -144.695 14:48:15 1 0
iteration LogLik wall cpu(sec) restrained
1 -145.277 14:48:15 0 0
2 -145.105 14:48:15 0 0
3 -145.066 14:48:15 0 0
4 -145.06 14:48:16 1 0
5 -145.06 14:48:16 1 0
iteration LogLik wall cpu(sec) restrained
1 -136.041 14:48:16 0 0
2 -135.37 14:48:16 0 0
3 -135.196 14:48:17 1 0
4 -135.18 14:48:17 1 0
5 -135.18 14:48:17 1 0
iteration LogLik wall cpu(sec) restrained
1 -150.148 14:48:17 0 0
2 -149.816 14:48:17 0 0
3 -149.73 14:48:18 1 0
4 -149.724 14:48:18 1 0
5 -149.724 14:48:18 1 0
iteration LogLik wall cpu(sec) restrained
1 -147.411 14:48:18 0 0
2 -146.706 14:48:18 0 1
3 -146.652 14:48:19 1 1
4 -146.638 14:48:19 1 1
5 -146.638 14:48:19 1 1
iteration LogLik wall cpu(sec) restrained
1 -154.447 14:47:17 0 0
2 -153.11 14:47:17 0 1
3 -152.771 14:47:18 1 1
4 -152.759 14:47:18 1 1
5 -152.759 14:47:18 1 1
iteration LogLik wall cpu(sec) restrained
1 -149.506 14:47:19 0 0
2 -148.779 14:47:19 0 1
3 -148.663 14:47:19 0 1
4 -148.569 14:47:20 1 1
5 -148.563 14:47:20 1 1
6 -148.563 14:47:20 1 1
iteration LogLik wall cpu(sec) restrained
1 -149.137 14:47:21 1 0
2 -148.8 14:47:21 1 0
3 -148.675 14:47:21 1 0
4 -148.645 14:47:21 1 0
5 -148.642 14:47:22 2 0
6 -148.641 14:47:22 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.439 14:47:23 1 0
2 -152.082 14:47:23 1 0
3 -151.937 14:47:23 1 0
4 -151.912 14:47:23 1 0
5 -151.911 14:47:24 2 0
6 -151.911 14:47:24 2 0
iteration LogLik wall cpu(sec) restrained
1 -147.194 14:47:25 1 0
2 -147.113 14:47:25 1 0
3 -147.095 14:47:25 1 0
4 -147.094 14:47:25 1 0
iteration LogLik wall cpu(sec) restrained
1 -148.403 14:47:26 0 0
2 -147.293 14:47:27 1 1
3 -147.179 14:47:27 1 1
4 -147.141 14:47:27 1 1
5 -147.141 14:47:27 1 1
iteration LogLik wall cpu(sec) restrained
1 -151.398 14:47:28 0 0
2 -150.933 14:47:28 0 0
3 -150.707 14:47:29 1 0
4 -150.648 14:47:29 1 0
5 -150.641 14:47:29 1 0
6 -150.64 14:47:29 1 0
iteration LogLik wall cpu(sec) restrained
1 -150.223 14:47:30 0 0
2 -149.838 14:47:31 1 0
3 -149.731 14:47:31 1 0
4 -149.721 14:47:31 1 0
5 -149.721 14:47:32 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.259 14:47:32 0 0
2 -151.675 14:47:33 1 0
3 -151.449 14:47:33 1 0
4 -151.401 14:47:33 1 0
5 -151.397 14:47:33 1 0
6 -151.397 14:47:34 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.761 14:47:34 0 0
2 -152.367 14:47:35 1 0
3 -152.19 14:47:35 1 0
4 -152.151 14:47:35 1 0
5 -152.148 14:47:35 1 0
6 -152.147 14:47:36 2 0
iteration LogLik wall cpu(sec) restrained
1 -149.479 14:47:36 0 0
2 -149.03 14:47:37 1 0
3 -148.888 14:47:37 1 0
4 -148.87 14:47:37 1 0
5 -148.869 14:47:37 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.411 14:47:38 0 0
2 -151.184 14:47:39 1 0
3 -151.098 14:47:39 1 0
4 -151.078 14:47:39 1 0
5 -151.075 14:47:39 1 0
6 -151.075 14:47:40 2 0
iteration LogLik wall cpu(sec) restrained
1 -151.972 14:47:40 0 0
2 -151.663 14:47:41 1 0
3 -151.547 14:47:41 1 0
4 -151.522 14:47:41 1 0
5 -151.52 14:47:41 1 0
6 -151.52 14:47:42 2 0
iteration LogLik wall cpu(sec) restrained
1 -148.353 14:47:43 0 0
2 -148.104 14:47:43 0 0
3 -148.036 14:47:43 0 0
4 -148.027 14:47:43 0 0
5 -148.027 14:47:44 1 0
iteration LogLik wall cpu(sec) restrained
1 -152.994 14:47:44 0 0
2 -151.515 14:47:45 1 1
3 -151.119 14:47:45 1 1
4 -151.113 14:47:45 1 1
5 -151.113 14:47:45 1 1
iteration LogLik wall cpu(sec) restrained
1 -150.323 14:47:46 0 0
2 -150.081 14:47:47 1 0
3 -149.973 14:47:47 1 0
4 -149.946 14:47:47 1 0
5 -149.944 14:47:47 1 0
6 -149.943 14:47:48 2 0
iteration LogLik wall cpu(sec) restrained
1 -147.903 14:47:48 0 0
2 -146.879 14:47:49 1 1
3 -146.736 14:47:49 1 1
4 -146.658 14:47:49 1 1
5 -146.658 14:47:49 1 1
iteration LogLik wall cpu(sec) restrained
1 -152.642 14:47:50 0 0
2 -152.092 14:47:50 0 0
3 -151.919 14:47:51 1 0
4 -151.892 14:47:51 1 0
5 -151.89 14:47:51 1 0
6 -151.89 14:47:51 1 0
iteration LogLik wall cpu(sec) restrained
1 -153.015 14:47:52 0 0
2 -152.799 14:47:52 0 0
3 -152.707 14:47:53 1 0
4 -152.684 14:47:53 1 0
5 -152.681 14:47:53 1 0
6 -152.681 14:47:53 1 0
iteration LogLik wall cpu(sec) restrained
1 -148.511 14:47:54 0 0
2 -147.621 14:47:54 0 1
3 -147.491 14:47:55 1 1
4 -147.444 14:47:55 1 1
5 -147.442 14:47:55 1 1
6 -147.442 14:47:55 1 1
iteration LogLik wall cpu(sec) restrained
1 -149.585 14:47:56 0 0
2 -149.237 14:47:56 0 0
3 -149.114 14:47:56 0 0
4 -149.084 14:47:57 1 0
5 -149.079 14:47:57 1 0
6 -149.079 14:47:57 1 0
iteration LogLik wall cpu(sec) restrained
1 -146.778 14:47:58 0 0
2 -146.473 14:47:58 0 0
3 -146.446 14:47:58 0 0
4 -146.445 14:47:58 0 0
5 -146.445 14:47:59 1 0
iteration LogLik wall cpu(sec) restrained
1 -150.006 14:47:59 0 0
2 -149.077 14:48:0 1 1
3 -148.985 14:48:0 1 1
4 -148.88 14:48:0 1 1
5 -148.879 14:48:0 1 1
6 -148.879 14:48:1 2 1
iteration LogLik wall cpu(sec) restrained
1 -153.991 14:48:1 0 0
2 -153.511 14:48:2 1 0
3 -153.307 14:48:2 1 0
4 -153.256 14:48:2 1 0
5 -153.249 14:48:2 1 0
6 -153.248 14:48:3 2 0
iteration LogLik wall cpu(sec) restrained
1 -150.417 14:48:4 1 0
2 -150.236 14:48:4 1 0
3 -150.175 14:48:4 1 0
4 -150.166 14:48:4 1 0
5 -150.165 14:48:5 2 0
iteration LogLik wall cpu(sec) restrained
1 -152.211 14:47:18 1 0
2 -152.041 14:47:18 1 0
3 -151.983 14:47:18 1 0
4 -151.974 14:47:18 1 0
5 -151.973 14:47:19 2 0
iteration LogLik wall cpu(sec) restrained
1 -147.042 14:47:19 0 0
2 -146.268 14:47:20 1 0
3 -145.961 14:47:20 1 0
4 -145.909 14:47:20 1 0
5 -145.907 14:47:20 1 0
6 -145.907 14:47:21 2 0
iteration LogLik wall cpu(sec) restrained
1 -151.433 14:47:21 0 0
2 -150.966 14:47:22 1 0
3 -150.82 14:47:22 1 0
4 -150.803 14:47:22 1 0
5 -150.803 14:47:22 1 0
iteration LogLik wall cpu(sec) restrained
1 -153.054 14:47:23 0 0
2 -152.975 14:47:23 0 0
3 -152.944 14:47:24 1 0
4 -152.939 14:47:24 1 0
5 -152.938 14:47:24 1 0
iteration LogLik wall cpu(sec) restrained
1 -147.104 14:47:25 0 0
2 -145.744 14:47:26 1 0
3 -145.348 14:47:26 1 0
4 -145.287 14:47:26 1 0
5 -145.284 14:47:26 1 0
6 -145.284 14:47:27 2 0
iteration LogLik wall cpu(sec) restrained
1 -151.786 14:47:27 0 0
2 -151.73 14:47:28 1 0
3 -151.707 14:47:28 1 0
4 -151.703 14:47:28 1 0
5 -151.703 14:47:29 2 0
iteration LogLik wall cpu(sec) restrained
1 -153.017 14:47:30 1 0
2 -152.695 14:47:30 1 0
3 -152.581 14:47:30 1 0
4 -152.558 14:47:31 2 0
5 -152.556 14:47:31 2 0
6 -152.555 14:47:31 2 0
iteration LogLik wall cpu(sec) restrained
1 -146.618 14:47:32 0 0
2 -144.897 14:47:32 0 0
3 -144.324 14:47:33 1 0
4 -144.249 14:47:33 1 0
5 -144.246 14:47:33 1 0
6 -144.246 14:47:34 2 0
iteration LogLik wall cpu(sec) restrained
1 -147.2 14:47:34 0 0
2 -146.673 14:47:35 1 0
3 -146.459 14:47:35 1 0
4 -146.422 14:47:35 1 0
5 -146.42 14:47:35 1 0
6 -146.42 14:47:36 2 0
iteration LogLik wall cpu(sec) restrained
1 -153.11 14:47:36 0 0
2 -152.844 14:47:37 1 0
3 -152.77 14:47:37 1 1
4 -152.769 14:47:37 1 1
5 -152.758 14:47:38 2 1
6 -152.758 14:47:38 2 1
iteration LogLik wall cpu(sec) restrained
1 -150.912 14:47:39 1 0
2 -150.611 14:47:39 1 0
3 -150.472 14:47:39 1 0
4 -150.44 14:47:40 2 0
5 -150.438 14:47:40 2 0
6 -150.438 14:47:40 2 0
iteration LogLik wall cpu(sec) restrained
1 -153.401 14:47:41 0 0
2 -152.848 14:47:41 0 0
3 -152.71 14:47:41 0 0
4 -152.694 14:47:42 1 0
5 -152.693 14:47:42 1 0
6 -152.693 14:47:42 1 0
iteration LogLik wall cpu(sec) restrained
1 -151.643 14:47:43 0 0
2 -151.186 14:47:43 0 0
3 -150.937 14:47:44 1 0
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4 -120.023 14:48:23 0 1The object “GEBVS_DOM” contains the GEBVs for each trait and clone. The table above shows the first five clones and their GEBVs for each trait.
GEBVS_DOM |>
group_by(Trait, ID_Clone) |>
summarise(GEBV = mean(GEBV)) %>%
pivot_wider(names_from = Trait, values_from = GEBV) %>%
head() %>%
kbl(escape = F, align = 'c') |>
kable_classic("hover", full_width = F, position = "center", fixed_thead = T)`summarise()` has grouped output by 'Trait'. You can override using the
`.groups` argument.| ID_Clone | DMC | FRY | HI | N_Roots | Nstem.Plant | Plant.Height | Root.Di | Root.Le | ShY | StC | StY | Stem.D |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| BGM_2042 | 0.4396103 | 1.2603202 | 1.8005941 | 0.4638549 | 0.1626190 | 0.0185335 | 0.4637511 | 0.9340454 | 1.8777402 | 0.4522034 | 0.3290377 | 0.0528354 |
| BGM0368.250437186 | 0.6182988 | -0.4875003 | 0.7386014 | 0.0559251 | -0.0222395 | -0.0196118 | -0.4864237 | -0.6736069 | -3.0870178 | 0.6243157 | -0.0475617 | -0.0425895 |
| BGM0424.250437187 | 0.0740729 | -0.1630034 | 0.0312075 | -0.1574062 | -0.0537993 | -0.0067990 | -0.3724140 | -0.4054880 | -1.2925178 | 0.0923974 | -0.0105394 | -0.0157553 |
| BGM0611.250437190 | -0.8635318 | -0.1995060 | -0.1799827 | 0.0135153 | 0.0344337 | -0.0528794 | -0.1603825 | 0.0008162 | -0.7913598 | -0.8565289 | -0.0663013 | -0.0707294 |
| BGM0652.250437861 | -0.1398403 | -0.1107219 | -0.4450446 | -0.1098286 | 0.0281517 | -0.0297611 | -0.3908125 | -0.1412208 | -0.0367098 | -0.1389182 | -0.0437859 | -0.0152233 |
| BGM0699.250437199 | -0.1875252 | -0.2716831 | -0.5937424 | -0.2782195 | -0.0560848 | -0.0054131 | -0.3179775 | -0.1420196 | -0.7187327 | -0.2015375 | -0.0688637 | 0.0107218 |
Acuracy and MSPE for each trait and repetition:
results_cv_DOM[-6] |>
group_by(Trait) %>%
summarise_all(mean) %>%
arrange(desc(Ac), MSPE) %>%
kbl(escape = F, align = 'c') |>
kable_classic("hover", full_width = F, position = "center", fixed_thead = T)| Trait | rep | Log | Ac | MSPE |
|---|---|---|---|---|
| Root.Le | 3 | 1 | 0.3624 | 1.8148 |
| Stem.D | 3 | 1 | 0.3534 | 0.0076 |
| ShY | 3 | 1 | 0.3216 | 12.5440 |
| FRY | 3 | 1 | 0.3210 | 1.1612 |
| Root.Di | 3 | 1 | 0.3150 | 3.3284 |
| StY | 3 | 1 | 0.2986 | 0.0710 |
| Plant.Height | 3 | 1 | 0.2956 | 0.0074 |
| Nstem.Plant | 3 | 1 | 0.2640 | 0.0278 |
| N_Roots | 3 | 1 | 0.2602 | 0.8548 |
| HI | 3 | 1 | 0.2308 | 11.9826 |
| StC | 3 | 1 | 0.2212 | 5.8236 |
| DMC | 3 | 1 | 0.2200 | 5.8532 |
The object “result_cv” is divided by repetition. In the “result_cv” objects for each repetition, “Rep” is the number of the repetition, “Log” is a diagnostic indicating if the order of the predicted breeding values matches the order of the adjusted means, “Ac” is the prediction accuracy (correlation between the GEBV and adjusted means), and “MSPE” is the mean square prediction error (the lower, the better).
Let’s now move on to processing each model. Since this can be time-consuming, I’ve separated it into parallel processing and each model into each script:
R version 4.3.3 (2024-02-29 ucrt)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19045)
Matrix products: default
locale:
[1] LC_COLLATE=Portuguese_Brazil.utf8 LC_CTYPE=Portuguese_Brazil.utf8
[3] LC_MONETARY=Portuguese_Brazil.utf8 LC_NUMERIC=C
[5] LC_TIME=Portuguese_Brazil.utf8
time zone: America/Sao_Paulo
tzcode source: internal
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] kableExtra_1.4.0 cvTools_0.3.3 robustbase_0.99-4-1
[4] lattice_0.22-6 lubridate_1.9.4 forcats_1.0.0
[7] stringr_1.5.1 dplyr_1.1.4 purrr_1.0.2
[10] readr_2.1.5 tidyr_1.3.1 tibble_3.2.1
[13] ggplot2_3.5.1 tidyverse_2.0.0 furrr_0.3.1
[16] future_1.34.0
loaded via a namespace (and not attached):
[1] gtable_0.3.6 xfun_0.50 bslib_0.8.0 tzdb_0.4.0
[5] vctrs_0.6.5 tools_4.3.3 generics_0.1.3 parallel_4.3.3
[9] DEoptimR_1.1-3-1 pkgconfig_2.0.3 Matrix_1.6-1 lifecycle_1.0.4
[13] compiler_4.3.3 git2r_0.35.0 munsell_0.5.1 codetools_0.2-20
[17] httpuv_1.6.15 htmltools_0.5.8.1 sass_0.4.9 yaml_2.3.10
[21] crayon_1.5.3 later_1.4.1 pillar_1.10.1 jquerylib_0.1.4
[25] MASS_7.3-60.0.1 cachem_1.1.0 parallelly_1.41.0 tidyselect_1.2.1
[29] digest_0.6.37 stringi_1.8.4 sommer_4.3.6 listenv_0.9.1
[33] rprojroot_2.0.4 fastmap_1.2.0 grid_4.3.3 colorspace_2.1-1
[37] cli_3.6.3 magrittr_2.0.3 withr_3.0.2 scales_1.3.0
[41] promises_1.3.2 timechange_0.3.0 rmarkdown_2.29 globals_0.16.3
[45] workflowr_1.7.1 hms_1.1.3 evaluate_1.0.3 knitr_1.49
[49] viridisLite_0.4.2 rlang_1.1.4 Rcpp_1.0.14 glue_1.8.0
[53] xml2_1.3.6 svglite_2.1.3 rstudioapi_0.17.1 jsonlite_1.8.9
[57] R6_2.5.1 systemfonts_1.1.0 fs_1.6.5 Weverton Gomes da Costa, Pós-Doutorando, Embrapa Mandioca e Fruticultura, wevertonufv@gmail.com↩︎