Update OpenAlexNodes.R

OpenAlexNodes.R

@@ -5,94 +5,82 @@ authorPubNodes <- function(keywords,pub_start_date,pub_end_date){
   pub_end_date <- pub_end_date
   
   
-  if(!is.character(keywords)) {
+  # create search engine function
+  search_engine <- function(keywords,pub_start_date,pub_end_date){
+    suppressPackageStartupMessages(library(openalexR))
+    suppressPackageStartupMessages(library(tidyverse))
     
-    shinyalert(
-      title = "Error!",
-      text = "You can only enter text values",
-      closeOnEsc = T,
-      closeOnClickOutside = T,
-      confirmButtonText = "OK",
-      timer = 4000
-    )
-  } else{
-    
-    # create search engine function
-    search_engine <- function(keywords,pub_start_date,pub_end_date){
-      suppressPackageStartupMessages(library(openalexR))
-      suppressPackageStartupMessages(library(tidyverse))
-      
-      options(openalexR.mailto = "[email protected]")
-      
-      # search engine
-      works_search <- oa_fetch(
-        entity = "works",
-        title.search = keywords,
-        cited_by_count = ">50",
-        from_publication_date = pub_start_date,
-        to_publication_date = pub_end_date,
-        options = list(sort = "cited_by_count:desc"),
-        verbose = FALSE
-      )
-      
-      return(works_search)
-      
-    }
-    
-    search_data <- search_engine(keywords,pub_start_date,pub_end_date)
-    
-    
-    # grab authors and group them according to collaboration
-    authors_collaboration_groups <- list()
-    for (i in 1:nrow(search_data)){
-      authors_collaboration_groups[[i]] <- search_data$author[[i]][2]
-    }
-    
-    # grab all authors
-    all_authors <- c()
-    for (i in 1:length(authors_collaboration_groups)) {
-      all_authors <- c(all_authors,authors_collaboration_groups[[i]][[1]])
-    }
-    
-    # get length of each authors collaboration
-    authors_length <- c()
-    for(authors in 1:length(authors_collaboration_groups)){
-      authors_length <- c(authors_length,authors_collaboration_groups[[authors]] |> nrow())
-    }
-    
-    # grab all publications
-    publications <- list()
-    for (i in 1:nrow(search_data)){
-      publications[[i]] <- rep(search_data$display_name[i], each = authors_length[i])
-    }
+    options(openalexR.mailto = "[email protected]")
     
-    # place all publications in a vector
-    all_publications <- c()
-    for(i in 1:length(publications)){
-      all_publications <- c(all_publications,publications[[i]])
-    }
-    
-    # create author_to_publication data frame
-    authors_to_publications <- data.frame(
-      Authors = all_authors,
-      Publications = all_publications
-    )
-    
-    # stack the df so that authors and publications
-    # are together as one column
-    stacked_df <- stack(authors_to_publications)
-    stacked_df <- unique.data.frame(stacked_df) # remove duplicate rows
-    stacked_df <- stacked_df[-2] # delete second column in df
-    
-    # create author_publications_nodes df
-    author_publication_nodes <- data.frame(
-      Id = 1:nrow(stacked_df),
-      Nodes = stacked_df$values,
-      Label = stacked_df$values
+    # search engine
+    works_search <- oa_fetch(
+      entity = "works",
+      title.search = keywords,
+      cited_by_count = ">50",
+      from_publication_date = pub_start_date,
+      to_publication_date = pub_end_date,
+      options = list(sort = "cited_by_count:desc"),
+      verbose = FALSE
     )
     
-    
-    return(author_publication_nodes)
+    return(works_search)
     
   }
+  
+  search_data <- search_engine(keywords,pub_start_date,pub_end_date)
+  
+  
+  # grab authors and group them according to collaboration
+  authors_collaboration_groups <- list()
+  for (i in 1:nrow(search_data)){
+    authors_collaboration_groups[[i]] <- search_data$author[[i]][2]
+  }
+  
+  # grab all authors
+  all_authors <- c()
+  for (i in 1:length(authors_collaboration_groups)) {
+    all_authors <- c(all_authors,authors_collaboration_groups[[i]][[1]])
+  }
+  
+  # get length of each authors collaboration
+  authors_length <- c()
+  for(authors in 1:length(authors_collaboration_groups)){
+    authors_length <- c(authors_length,authors_collaboration_groups[[authors]] |> nrow())
+  }
+  
+  # grab all publications
+  publications <- list()
+  for (i in 1:nrow(search_data)){
+    publications[[i]] <- rep(search_data$display_name[i], each = authors_length[i])
+  }
+  
+  # place all publications in a vector
+  all_publications <- c()
+  for(i in 1:length(publications)){
+    all_publications <- c(all_publications,publications[[i]])
+  }
+  
+  # create author_to_publication data frame
+  authors_to_publications <- data.frame(
+    Authors = all_authors,
+    Publications = all_publications
+  )
+  
+  # stack the df so that authors and publications
+  # are together as one column
+  stacked_df <- stack(authors_to_publications)
+  stacked_df <- unique.data.frame(stacked_df) # remove duplicate rows
+  stacked_df <- stacked_df[-2] # delete second column in df
+  
+  # create author_publications_nodes df
+  author_publication_nodes <- data.frame(
+    Id = 1:nrow(stacked_df),
+    Nodes = stacked_df$values,
+    Label = stacked_df$values
+  )
+  
+  
+  return(author_publication_nodes)
+  
 }
+