|
|
|
stats::setNames(
|
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|
0:6,
|
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|
|
c("OFF", "FATAL", "ERROR", "WARNING", "INFO", "DEBUG", "TRACE")
|
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|
|
) -> .ll_trans
|
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|
#' AthenaJDBC
|
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|
|
#'
|
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|
|
#' @export
|
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|
|
setClass(
|
|
|
|
|
|
|
|
"AthenaDriver",
|
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|
|
representation(
|
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|
"JDBCDriver",
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|
|
identifier.quote = "character",
|
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|
|
jdrv = "jobjRef"
|
|
|
|
)
|
|
|
|
|
|
|
|
)
|
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|
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|
|
|
|
#' AthenaJDBC
|
|
|
|
#'
|
|
|
|
#' @export
|
|
|
|
Athena <- function(identifier.quote = '`') {
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|
|
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|
JDBC(
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|
driverClass = "com.simba.athena.jdbc.Driver",
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|
|
system.file("java", "AthenaJDBC42_2.0.6.jar", package = "metis"),
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|
|
identifier.quote = identifier.quote
|
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|
|
) -> drv
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|
|
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|
return(as(drv, "AthenaDriver"))
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|
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|
}
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|
|
|
|
|
|
|
#' AthenaJDBC
|
|
|
|
#'
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|
|
|
#' @param provider JDBC auth provider (ideally leave default)
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|
|
#' @param region AWS region the Athena tables are in
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|
|
#' @param s3_staging_dir A write-able bucket on S3 that you have permissions for
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|
|
|
#' @param schema_name LOL if only this actually worked with Amazon's hacked Presto driver
|
|
|
|
#' @param max_error_retries,connection_timeout,socket_timeout
|
|
|
|
#' technical connection info that you should only muck with if you know what you're doing.
|
|
|
|
#' @param log_path,log_level The Athena JDBC driver can (shockingly) provide a decent bit
|
|
|
|
#' of data in logs. Set this to a temporary directory or something log4j can use. For
|
|
|
|
#' `log_level` use the names ("INFO", "DEBUG", "WARN", "ERROR", "ALL", "OFF", "FATAL", "TRACE") or
|
|
|
|
#' their corresponding integer values 0-6.
|
|
|
|
#' @param ... unused
|
|
|
|
#' @references <https://docs.aws.amazon.com/athena/latest/ug/connect-with-jdbc.html>
|
|
|
|
#' @export
|
|
|
|
setMethod(
|
|
|
|
|
|
|
|
"dbConnect",
|
|
|
|
"AthenaDriver",
|
|
|
|
|
|
|
|
def = function(
|
|
|
|
drv,
|
|
|
|
provider = "com.simba.athena.amazonaws.auth.DefaultAWSCredentialsProviderChain",
|
|
|
|
region = "us-east-1",
|
|
|
|
s3_staging_dir = Sys.getenv("AWS_S3_STAGING_DIR"),
|
|
|
|
schema_name = "default",
|
|
|
|
max_error_retries = 10,
|
|
|
|
connection_timeout = 10000,
|
|
|
|
socket_timeout = 10000,
|
|
|
|
# retry_base_delay = 100,
|
|
|
|
# retry_max_backoff_time = 1000,
|
|
|
|
log_path,
|
|
|
|
log_level,
|
|
|
|
...) {
|
|
|
|
|
|
|
|
conn_string = sprintf(
|
|
|
|
'jdbc:awsathena://athena.%s.amazonaws.com:443/%s', region, schema_name
|
|
|
|
)
|
|
|
|
|
|
|
|
if (!(log_level %in% 0:6)) log_level <- .ll_trans[log_level]
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
callNextMethod(
|
|
|
|
drv,
|
|
|
|
conn_string,
|
|
|
|
S3OutputLocation = s3_staging_dir,
|
|
|
|
Schema = schema_name,
|
|
|
|
MaxErrorRetry = max_error_retries,
|
|
|
|
ConnectTimeout = connection_timeout,
|
|
|
|
SocketTimeout = socket_timeout,
|
|
|
|
# retry_base_delay = retry_base_delay,
|
|
|
|
# retry_max_backoff_time = retry_max_backoff_time,
|
|
|
|
LogPath = log_path,
|
|
|
|
LogLevel = log_level,
|
|
|
|
AwsCredentialsProviderClass = provider,
|
|
|
|
...
|
|
|
|
) -> jc
|
|
|
|
|
|
|
|
return(as(jc, "AthenaConnection"))
|
|
|
|
|
|
|
|
}
|
|
|
|
|
|
|
|
)
|
|
|
|
|
|
|
|
#' AthenaJDBC
|
|
|
|
#'
|
|
|
|
#' @export
|
|
|
|
setClass("AthenaConnection", contains = "JDBCConnection")
|
|
|
|
|
|
|
|
#' AthenaJDBC
|
|
|
|
#'
|
|
|
|
#' @export
|
|
|
|
setClass("AthenaResult", contains = "JDBCResult")
|
|
|
|
|
|
|
|
#' AthenaJDBC
|
|
|
|
#'
|
|
|
|
#' @param conn Athena connection
|
|
|
|
#' @param statement SQL statement
|
|
|
|
#' @param ... unused
|
|
|
|
#' @export
|
|
|
|
setMethod(
|
|
|
|
|
|
|
|
"dbSendQuery",
|
|
|
|
signature(conn="AthenaConnection", statement="character"),
|
|
|
|
|
|
|
|
definition = function(conn, statement, ...) {
|
|
|
|
return(as(callNextMethod(), "AthenaResult"))
|
|
|
|
}
|
|
|
|
|
|
|
|
)
|
|
|
|
|
|
|
|
#' AthenaJDBC
|
|
|
|
#'
|
|
|
|
#' @param conn Athena connection
|
|
|
|
#' @param statement SQL statement
|
|
|
|
#' @param ... unused
|
|
|
|
#' @importFrom rJava .jcall
|
|
|
|
#' @export
|
|
|
|
setMethod(
|
|
|
|
|
|
|
|
"dbGetQuery",
|
|
|
|
signature(conn="AthenaConnection", statement="character"),
|
|
|
|
|
|
|
|
definition = function(conn, statement, type_convert=FALSE, ...) {
|
|
|
|
r <- dbSendQuery(conn, statement, ...)
|
|
|
|
on.exit(.jcall(r@stat, "V", "close"))
|
|
|
|
res <- dplyr::tbl_df(fetch(r, -1, block=1000))
|
|
|
|
if (type_convert) res <- readr::type_convert(res)
|
|
|
|
res
|
|
|
|
}
|
|
|
|
|
|
|
|
)
|
|
|
|
#' AthenaJDBC
|
|
|
|
#'
|
|
|
|
#' @param conn Athena connection
|
|
|
|
#' @param pattern table name pattern
|
|
|
|
#' @param schema Athena schema name
|
|
|
|
#' @param ... unused
|
|
|
|
#' @export
|
|
|
|
setMethod(
|
|
|
|
|
|
|
|
"dbListTables",
|
|
|
|
signature(conn="AthenaConnection"),
|
|
|
|
|
|
|
|
definition = function(conn, pattern='*', schema, ...) {
|
|
|
|
|
|
|
|
if (missing(pattern)) {
|
|
|
|
dbGetQuery(
|
|
|
|
conn, sprintf("SHOW TABLES IN %s", schema)
|
|
|
|
) -> x
|
|
|
|
} else {
|
|
|
|
dbGetQuery(
|
|
|
|
conn, sprintf("SHOW TABLES IN %s %s", schema, dbQuoteString(conn, pattern))
|
|
|
|
) -> x
|
|
|
|
}
|
|
|
|
|
|
|
|
x$tab_name
|
|
|
|
}
|
|
|
|
|
|
|
|
)
|
|
|
|
|
|
|
|
#' AthenaJDBC
|
|
|
|
#'
|
|
|
|
#' @param conn Athena connection
|
|
|
|
#' @param name table name
|
|
|
|
#' @param schema Athena schema name
|
|
|
|
#' @param ... unused
|
|
|
|
#' @export
|
|
|
|
setMethod(
|
|
|
|
|
|
|
|
"dbExistsTable",
|
|
|
|
signature(conn="AthenaConnection", name="character"),
|
|
|
|
|
|
|
|
definition = function(conn, name, schema, ...) {
|
|
|
|
length(dbListTables(conn, schema=schema, pattern=name)) > 0
|
|
|
|
}
|
|
|
|
|
|
|
|
)
|
|
|
|
|
|
|
|
#' AthenaJDBC
|
|
|
|
#'
|
|
|
|
#' @param conn Athena connection
|
|
|
|
#' @param name table name
|
|
|
|
#' @param schema Athena schema name
|
|
|
|
#' @param ... unused
|
|
|
|
#' @export
|
|
|
|
setMethod(
|
|
|
|
|
|
|
|
"dbListFields",
|
|
|
|
signature(conn="AthenaConnection", name="character"),
|
|
|
|
|
|
|
|
definition = function(conn, name, schema, ...) {
|
|
|
|
query <- sprintf("SELECT * FROM %s.%s LIMIT 1", schema, name)
|
|
|
|
res <- dbGetQuery(conn, query)
|
|
|
|
colnames(res)
|
|
|
|
}
|
|
|
|
|
|
|
|
)
|
|
|
|
|
|
|
|
#' AthenaJDBC
|
|
|
|
#'
|
|
|
|
#' @param conn Athena connection
|
|
|
|
#' @param name table name
|
|
|
|
#' @param schema Athena schema name
|
|
|
|
#' @param ... unused
|
|
|
|
#' @export
|
|
|
|
setMethod(
|
|
|
|
|
|
|
|
"dbReadTable",
|
|
|
|
signature(conn="AthenaConnection", name="character"),
|
|
|
|
|
|
|
|
definition = function(conn, name, schema, ...) {
|
|
|
|
query <- sprintf("SELECT * FROM %s.%s LIMIT 1", schema, dbQuoteString(conn, name))
|
|
|
|
dbGetQuery(conn, query)
|
|
|
|
}
|
|
|
|
|
|
|
|
)
|