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92 lines
3 KiB
R
92 lines
3 KiB
R
# install.packages("data.table")
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# install.packages("RSQLite")
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# install.packages("DBI")
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library(data.table)
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library(RSQLite)
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library(DBI)
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data.dir <- ""
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# Input data directory here, with trailing "/"
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source("https://gist.githubusercontent.com/jeffwong/5925000/raw/bf02ed0dd2963169a91664be02fb18e45c4d1e20/sqlitewritetable.R")
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# From https://gist.github.com/jeffwong/5925000
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# Modifies RSQLite's sqliteWriteTable function so as to reject duplicates
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con <- DBI::dbConnect(RSQLite::SQLite(), paste0(data.dir, "tx-graph-node-indices.db"))
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DBI::dbExecute(con, "CREATE TABLE nodes (
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node TEXT,
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node_index INTEGER PRIMARY KEY AUTOINCREMENT,
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unique(node)
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)")
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DBI::dbWriteTable(con, "edgelist",
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data.frame(origin = character(0), destination = character(0), stringsAsFactors = FALSE))
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tx.graph.files <- list.files(data.dir)
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tx.graph.files <- tx.graph.files[grepl("^tx_graph.+rds$", tx.graph.files)]
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tx.graph.indexed <- vector("list", length(tx.graph.files))
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names(tx.graph.indexed) <- tx.graph.files
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for (file.iter in tx.graph.files) {
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tx.graph.chunk <- readRDS(paste0(data.dir, file.iter))
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tx.graph.chunk <-
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rbind(
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data.table(origin = paste0(tx.graph.chunk$incoming$origin.txid, "-",
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formatC(tx.graph.chunk$incoming$origin.position, width = 4, format = "f", flag = "0", digits = 0)),
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destination = tx.graph.chunk$incoming$txid, stringsAsFactors = FALSE),
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data.table(origin = tx.graph.chunk$outgoing$txid,
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destination = paste0(tx.graph.chunk$outgoing$txid, "-",
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formatC(tx.graph.chunk$outgoing$position, width = 4, format = "f", flag = "0", digits = 0)), stringsAsFactors = FALSE)
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)
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DBI::dbWriteTable(con, "edgelist",
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tx.graph.chunk, append = TRUE)
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new.nodes <- unique(c(tx.graph.chunk$origin, tx.graph.chunk$destination))
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nodes.to.insert <- data.frame(node = new.nodes, node_index = NA, stringsAsFactors = FALSE)
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mysqliteWriteTable(con, "nodes",
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nodes.to.insert, append = TRUE, row.names = FALSE, ignore = TRUE)
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cat(file.iter, base::date(), "\n")
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}
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DBI::dbWriteTable(con, "edgelist_intermediate_1",
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data.frame(origin = character(0), destination = character(0),
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node_index = integer(0), stringsAsFactors = FALSE))
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base::date()
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DBI::dbExecute(con, "INSERT INTO edgelist_intermediate_1 SELECT
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origin, destination, node_index FROM
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edgelist JOIN nodes ON edgelist.origin = nodes.node")
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base::date()
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DBI::dbExecute(con,
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"ALTER TABLE edgelist_intermediate_1 RENAME COLUMN node_index TO origin_index")
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DBI::dbWriteTable(con, "edgelist_intermediate_2",
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data.frame(origin = character(0), destination = character(0),
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origin_index = integer(0), node_index = integer(0), stringsAsFactors = FALSE))
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base::date()
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DBI::dbExecute(con, "INSERT INTO edgelist_intermediate_2 SELECT
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origin, destination, origin_index, node_index FROM
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edgelist_intermediate_1 JOIN nodes ON edgelist_intermediate_1.destination = nodes.node")
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base::date()
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DBI::dbExecute(con,
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"ALTER TABLE edgelist_intermediate_2 RENAME COLUMN node_index TO destination_index")
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