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#' Create tree structures for group search solutions.
#' @keywords internal
batch.create.tree <- function(hist, ind_hist, ind_fit, subgroup, names.ts_list, sub){
######
# hist <- x$grp_hist
# ind_hist <- x$ind_hist
# ind_fit <- x$ind_fit
# subgroup <- x$dat$subgroup
# names.ts_list <- names(x$dat$ts_list)
# sub <- x$sub
#####
#-----------------------------------------------#
# If subgroup == FALSE #
#-----------------------------------------------#
if(!subgroup){
# ind_hist <- ind_hist_old; j <- 1
final_grp_hist<- hist[[length(hist)]]
final_grp_hist <- lapply(seq_along(final_grp_hist), function(i){
final_grp_hist[[i]]$grp_sol <- i
final_grp_hist[[i]]$fit <- NA
final_grp_hist[[i]]
})
trees_ind <- lapply(seq_along(1:length(ind_hist[[1]])), function(j){
ind_hist_k <- lapply(seq_along(final_grp_hist), function(i){
lapply(seq_along(ind_hist[[i]][[j]]), function(l){
list(
list(
"subj" = names.ts_list[j],
"add_syntax" = final_grp_hist[[i]]$add_syntax,
"group_sol" = ind_hist[[i]][[j]][[l]]$grp_sol,
"ind_sol" = NA,
"pruned" = final_grp_hist[[i]]$pruned,
"stage" = "group",
"fit" = NA
),
list(
"subj" = names.ts_list[j],
"add_syntax" = c(final_grp_hist[[i]]$add_syntax, ind_hist[[i]][[j]][[l]]$add_syntax),
"group_sol" = ind_hist[[i]][[j]][[l]]$grp_sol,
"ind_sol" = paste0(ind_hist[[i]][[j]][[l]]$grp_sol, "_",
ind_hist[[i]][[j]][[l]]$ind_sol),
"pruned" = ind_hist[[i]][[j]][[l]]$pruned,
"stage" = "individual",
"fit" = ind_fit[[i]][[j]][[l]]$fits
)
)
})
})
tree_ind <- create.tree(ind_hist_k, subgroup, individual = TRUE)
tree_ind
})
if(final_grp_hist[[1]]$n_paths == 0){
trees_grp <- NA
} else {
grp_hist_i <- lapply(seq_along(final_grp_hist), function(i){
list(
"subj"= NA,
"add_syntax" = final_grp_hist[[i]]$add_syntax,
"grp_sol" = i,
"ind_sol" = NA,
"pruned" = final_grp_hist[[i]]$pruned,
"stage" = "group",
"fit" = NA
)
})
trees_grp <- create.tree(grp_hist_i, subgroup, individual = FALSE)
}
# ind_all <- lapply(seq_along(ind_hist), function(i){
# lapply(seq_along(ind_hist[[i]]), function(j){
# lapply(seq_along(ind_hist[[i]][[j]]), function(l){
# list(
# list(
# "subj_id" = j,
# "add_syntax" = final_grp_hist[[i]]$add_syntax,
# "group_sol" = ind_hist[[i]][[j]][[l]]$grp_sol,
# "ind_sol" = NA,
# "pruned" = final_grp_hist[[i]]$pruned,
# "stage" = "group"
# ),
# list(
# "subj_id" = j,
# "add_syntax" = c(final_grp_hist[[i]]$add_syntax, ind_hist[[i]][[j]][[l]]$add_syntax),
# "group_sol" = ind_hist[[i]][[j]][[l]]$grp_sol,
# "ind_sol" = ind_hist[[i]][[j]][[l]]$ind_sol,
# "pruned" = ind_hist[[i]][[j]][[l]]$pruned,
# "stage" = "individual"
# )
# )
# })
# })
# })
return(list(trees_grp = trees_grp, trees_ind = trees_ind))
#-----------------------------------------------#
# If subgroup == TRUE #
#-----------------------------------------------#
} else if(subgroup){
#-----------------------------------------------#
# Individuals Plotted Individually #
#-----------------------------------------------#
final_grp_hist <- hist[[length(hist)-1]]
final_sub_hist <- hist[[length(hist)]]
trees <- lapply(seq_along(1:length(ind_hist[[1]])), function(j){
ind_hist_k <- lapply(seq_along(final_grp_hist), function(i){
subgrp_m <- sub[[i]]$sub_mem[sub[[i]]$sub_mem$names == names.ts_list[j],"sub_membership"]
grp_i_idx <- unlist(lapply(final_sub_hist, "[", c("grp_sol"))) == i
sub_m_idx <- unlist(lapply(final_sub_hist, "[", c("sub_sol"))) == subgrp_m
grp_i_sub_m_idx <- which(grp_i_idx & sub_m_idx)
lapply(seq_along(ind_hist[[i]][[j]]), function(l){
list(
list(
"subj" = names.ts_list[j],
"add_syntax" = final_grp_hist[[i]]$add_syntax,
"grp_sol" = ind_hist[[i]][[j]][[l]]$grp_sol,
"sub_sol" = ind_hist[[i]][[j]][[l]]$sub_sol,
"ind_sol" = paste0(ind_hist[[i]][[j]][[l]]$grp_sol, "_",ind_hist[[i]][[j]][[l]]$ind_sol),
"pruned" = final_grp_hist[[i]]$pruned,
"stage" = "group",
"modularity" = NA,
"fit" = NA
),
list(
"subj" = names.ts_list[j],
"add_syntax" = c(final_grp_hist[[i]]$add_syntax, final_sub_hist[[grp_i_sub_m_idx]]$add_syntax),
"grp_sol" = ind_hist[[i]][[j]][[l]]$grp_sol,
"sub_sol" = ind_hist[[i]][[j]][[l]]$sub_sol,
"ind_sol" = paste0(ind_hist[[i]][[j]][[l]]$grp_sol, "_",ind_hist[[i]][[j]][[l]]$ind_sol),
"pruned" = final_sub_hist[[grp_i_sub_m_idx]]$pruned,
"stage" = "subgroup",
"modularity" = NA,
"fit" = NA
),
list(
"subj" = names.ts_list[j],
"add_syntax" = c(final_grp_hist[[i]]$add_syntax,
final_sub_hist[[grp_i_sub_m_idx]]$add_syntax,
ind_hist[[i]][[j]][[l]]$add_syntax
),
"group_sol" = ind_hist[[i]][[j]][[l]]$grp_sol,
"sub_sol" = ind_hist[[i]][[j]][[l]]$sub_sol,
"ind_sol" = paste0(ind_hist[[i]][[j]][[l]]$grp_sol, "_",ind_hist[[i]][[j]][[l]]$ind_sol),
"pruned" = c(final_grp_hist[[i]]$pruned, ind_hist[[i]][[j]][[l]]$pruned),
"stage" = "individual",
"modularity" = NA,
"fit" = ind_fit[[i]][[j]][[l]]$fits
)
)
})
})
trees_ind <- create.tree(ind_hist_k, subgroup, individual = TRUE)
})
#-----------------------------------------------#
# Individuals Plotted Together #
#-----------------------------------------------#
# final_grp_hist <- hist[[length(hist)-1]]
# final_sub_hist <- hist[[length(hist)]]
#
# all_ind <- lapply(seq_along(1:length(ind_hist[[1]])), function(j){
#
# ind_hist_k <- lapply(seq_along(final_grp_hist), function(i){
#
# subgrp_m <- sub[[i]]$sub_mem[sub[[i]]$sub_mem$names == names.ts_list[j],"sub_membership"]
# grp_i_idx <- unlist(lapply(final_sub_hist, "[", c("grp_sol"))) == i
# sub_m_idx <- unlist(lapply(final_sub_hist, "[", c("sub_sol"))) == subgrp_m
# grp_i_sub_m_idx <- which(grp_i_idx & sub_m_idx)
#
# lapply(seq_along(ind_hist[[i]][[j]]), function(l){
# list(
# list(
# "subj" = names.ts_list[j],
# "add_syntax" = final_grp_hist[[i]]$add_syntax,
# "grp_sol" = ind_hist[[i]][[j]][[l]]$grp_sol,
# "sub_sol" = ind_hist[[i]][[j]][[l]]$sub_sol,
# "ind_sol" = paste0(ind_hist[[i]][[j]][[l]]$grp_sol, "_",ind_hist[[i]][[j]][[l]]$ind_sol),
# "pruned" = final_grp_hist[[i]]$pruned,
# "stage" = "group",
# "modularity" = NA,
# "fit" = NA
# ),
# list(
# "subj" = names.ts_list[j],
# "add_syntax" = c(final_grp_hist[[i]]$add_syntax, final_sub_hist[[grp_i_sub_m_idx]]$add_syntax),
# "grp_sol" = ind_hist[[i]][[j]][[l]]$grp_sol,
# "sub_sol" = ind_hist[[i]][[j]][[l]]$sub_sol,
# "ind_sol" = paste0(ind_hist[[i]][[j]][[l]]$grp_sol, "_",ind_hist[[i]][[j]][[l]]$ind_sol),
# "pruned" = final_sub_hist[[grp_i_sub_m_idx]]$pruned,
# "stage" = "subgroup",
# "modularity" = NA,
# "fit" = NA
# ),
# list(
# "subj" = names.ts_list[j],
# "add_syntax" = c(final_grp_hist[[i]]$add_syntax,
# final_sub_hist[[grp_i_sub_m_idx]]$add_syntax,
# ind_hist[[i]][[j]][[l]]$add_syntax
# ),
# "group_sol" = ind_hist[[i]][[j]][[l]]$grp_sol,
# "sub_sol" = ind_hist[[i]][[j]][[l]]$sub_sol,
# "ind_sol" = paste0(ind_hist[[i]][[j]][[l]]$grp_sol, "_",ind_hist[[i]][[j]][[l]]$ind_sol),
# "pruned" = c(final_grp_hist[[i]]$pruned, ind_hist[[i]][[j]][[l]]$pruned),
# "stage" = "individual",
# "modularity" = NA,
# "fit" = ind_fit[[i]][[j]][[l]]$fits
# )
# )
# })
# })
# })
#-----------------------------------------------#
# Group subgroup History #
#-----------------------------------------------#
final_grp_hist <- hist[[length(hist)-1]]
final_sub_hist <- hist[[length(hist)]]
grpsub_hist <- lapply(seq_along(final_sub_hist), function(i){
list(
list(
"add_syntax" = final_grp_hist[[final_sub_hist[[i]]$grp_sol]]$add_syntax,
"grp_sol" = final_sub_hist[[i]]$grp_sol,
"sub_sol" = NA,
"pruned" = final_grp_hist[[final_sub_hist[[i]]$grp_sol]]$pruned,
"stage" = "group",
"modularity" = NA,
"fit" = NA
),
list(
"add_syntax" = c(final_grp_hist[[final_sub_hist[[i]]$grp_sol]]$add_syntax,
final_sub_hist[[i]]$add_syntax),
"grp_sol" = final_sub_hist[[i]]$grp_sol,
"sub_sol" = final_sub_hist[[i]]$sub_sol,
"pruned" = final_sub_hist[[i]]$pruned,
"stage" = "subgroup",
"modularity" = sub[[final_sub_hist[[i]]$grp_sol]]$modularity,
"fit" = NA
)
)
})
trees_grpsub <- create.tree(grpsub_hist, subgroup, individual = FALSE)
return(list(trees_grp = trees_grpsub, trees_ind = trees))
}
}
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