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<!-- README.md is generated from README.Rmd. Please edit that file -->
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[](https://doi.org/10.5281/zenodo.1248912)
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[](https://travis-ci.org/hrbrmstr/sergeant)
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[](https://codecov.io/gh/hrbrmstr/sergeant)
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[](https://cran.r-project.org/package=sergeant)
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# 💂 sergeant
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Tools to Transform and Query Data with ‘Apache’ ‘Drill’
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## \*\* IMPORTANT \*\*
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Version 0.7.0+ (a.k.a. the main branch) splits off the JDBC interface
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into a separate package `sergeant.caffeinated`
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([GitLab](https://gitlab.com/hrbrmstr/sergeant-caffeinated);
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[GitHub](https://github.com/hrbrmstr/sergeant-caffeinated)).
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I\# Description
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Drill + `sergeant` is (IMO) a streamlined alternative to Spark +
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`sparklyr` if you don’t need the ML components of Spark (i.e. just need
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to query “big data” sources, need to interface with parquet, need to
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combine disparate data source types — json, csv, parquet, rdbms - for
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aggregation, etc). Drill also has support for spatial queries.
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Using Drill SQL queries that reference parquet files on a local linux or
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macOS workstation can often be more performant than doing the same data
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ingestion & wrangling work with R (especially for large or disperate
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data sets). Drill can often help further streamline workflows that
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involve wrangling many tiny JSON files on a daily basis.
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Drill can be obtained from <https://drill.apache.org/download/> (use
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“Direct File Download”). Drill can also be installed via
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[Docker](https://drill.apache.org/docs/running-drill-on-docker/). For
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local installs on Unix-like systems, a common/suggestion location for
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the Drill directory is `/usr/local/drill` as the install directory.
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Drill embedded (started using the `$DRILL_BASE_DIR/bin/drill-embedded`
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script) is a super-easy way to get started playing with Drill on a
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single workstation and most of many workflows can “get by” using Drill
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this way.
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There are a few convenience wrappers for various informational SQL
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queries (like `drill_version()`). Please file an PR if you add more.
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Some of the more “controlling vs data ops” REST API functions aren’t
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implemented. Please file a PR if you need those.
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The following functions are implemented:
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**`DBI`** (REST)
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- A “just enough” feature complete R `DBI` driver has been implemented
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using the Drill REST API, mostly to facilitate the `dplyr`
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interface. Use the `RJDBC` driver interface if you need more `DBI`
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functionality.
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- This also means that SQL functions unique to Drill have also been
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“implemented” (i.e. made accessible to the `dplyr` interface). If
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you have custom Drill SQL functions that need to be implemented
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please file an issue on GitHub. Many should work without it, but
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some may require a custom interface.
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**`dplyr`**: (REST)
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- `src_drill`: Connect to Drill (using `dplyr`) + supporting functions
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Note that a number of Drill SQL functions have been mapped to R
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functions (e.g. `grepl`) to make it easier to transition from
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non-database-backed SQL ops to Drill. See the help on
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`drill_custom_functions` for more info on these helper Drill custom
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function mappings.
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**Drill APIs**:
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- `drill_connection`: Setup parameters for a Drill server/cluster
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connection
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- `drill_active`: Test whether Drill HTTP REST API server is up
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- `drill_cancel`: Cancel the query that has the given queryid
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- `drill_functions`: Show all the available Drill built-in functions &
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UDFs (Apache Drill 1.15.0+ required)
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- `drill_jdbc`: Connect to Drill using JDBC
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- `drill_metrics`: Get the current memory metrics
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- `drill_options`: List the name, default, and data type of the system
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and session options
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- `drill_popts`: Show all the available Drill options (1.15.0+)
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- `drill_profile`: Get the profile of the query that has the given
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query id
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- `drill_profiles`: Get the profiles of running and completed queries
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- `drill_query`: Submit a query and return results
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- `drill_set`: Set Drill SYSTEM or SESSION options
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- `drill_settings_reset`: Changes (optionally, all) session settings
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back to system defaults
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- `drill_show_files`: Show files in a file system schema.
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- `drill_show_schemas`: Returns a list of available schemas.
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- `drill_stats`: Get Drillbit information, such as ports numbers
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- `drill_status`: Get the status of Drill
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- `drill_storage`: Get the list of storage plugin names and
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configurations
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- `drill_system_reset`: Changes (optionally, all) system settings back
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to system defaults
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- `drill_threads`: Get information about threads
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- `drill_uplift`: Turn a columnar query results into a type-converted
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tbl
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- `drill_use`: Change to a particular schema.
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- `drill_version`: Identify the version of Drill running
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**Helpers**
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- `ctas_profile`: Generate a Drill CTAS Statement from a Query
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- `drill_up`: sart a Dockerized Drill Instance \# `sdrill_down`: stop
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a Dockerized Drill Instance by container id
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- `howall_drill`: Show all dead and running Drill Docker containers
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- `stopall_drill`: Prune all dead and running Drill Docker containers
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# Installation
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``` r
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install.packages("sergeant", repos = "https://cinc.rud.is")
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# or
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devtools::install_git("https://git.rud.is/hrbrmstr/sergeant.git")
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# or
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devtools::install_git("https://git.sr.ht/~hrbrmstr/sergeant")
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# or
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devtools::install_gitlab("hrbrmstr/sergeant")
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# or
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devtools::install_bitbucket("hrbrmstr/sergeant")
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# or
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devtools::install_github("hrbrmstr/sergeant")
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```
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# Usage
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### `dplyr` interface
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``` r
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library(sergeant)
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library(tidyverse)
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# use localhost if running standalone on same system otherwise the host or IP of your Drill server
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ds <- src_drill("localhost") #ds
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db <- tbl(ds, "cp.`employee.json`")
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# without `collect()`:
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count(db, gender, marital_status)
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## # Source: lazy query [?? x 3]
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## # Database: DrillConnection
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## # Groups: gender
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## gender marital_status n
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## <chr> <chr> <dbl>
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## 1 F S 297
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## 2 M M 278
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## 3 M S 276
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## 4 F M 304
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count(db, gender, marital_status) %>% collect()
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## # A tibble: 4 x 3
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## # Groups: gender [2]
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## gender marital_status n
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## <chr> <chr> <dbl>
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## 1 F S 297
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## 2 M M 278
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## 3 M S 276
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## 4 F M 304
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group_by(db, position_title) %>%
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count(gender) -> tmp2
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group_by(db, position_title) %>%
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count(gender) %>%
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ungroup() %>%
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mutate(full_desc = ifelse(gender == "F", "Female", "Male")) %>%
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collect() %>%
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select(Title = position_title, Gender = full_desc, Count = n)
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## # A tibble: 30 x 3
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## Title Gender Count
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## <chr> <chr> <dbl>
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## 1 President Female 1
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## 2 VP Country Manager Male 3
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## 3 VP Country Manager Female 3
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## 4 VP Information Systems Female 1
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## 5 VP Human Resources Female 1
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## 6 Store Manager Female 13
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## 7 VP Finance Male 1
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## 8 Store Manager Male 11
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## 9 HQ Marketing Female 2
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## 10 HQ Information Systems Female 4
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## # … with 20 more rows
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arrange(db, desc(employee_id)) %>% print(n = 20)
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## # Source: table<cp.`employee.json`> [?? x 20]
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## # Database: DrillConnection
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## # Ordered by: desc(employee_id)
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## employee_id full_name first_name last_name position_id position_title store_id department_id birth_date hire_date
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## <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
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## 1 999 Beverly … Beverly Dittmar 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 2 998 Elizabet… Elizabeth Jantzer 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 3 997 John Swe… John Sweet 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 4 996 William … William Murphy 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 5 995 Carol Li… Carol Lindsay 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 6 994 Richard … Richard Burke 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 7 993 Ethan Bu… Ethan Bunosky 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 8 992 Claudett… Claudette Cabrera 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 9 991 Maria Te… Maria Terry 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 10 990 Stacey C… Stacey Case 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 11 99 Elizabet… Elizabeth Horne 18 Store Tempora… 6 18 1976-10-05 1997-01-…
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## 12 989 Dominick… Dominick Nutter 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 13 988 Brian Wi… Brian Willeford 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 14 987 Margaret… Margaret Clendenen 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 15 986 Maeve Wa… Maeve Wall 17 Store Permane… 8 17 1914-02-02 1998-01-…
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## 16 985 Mildred … Mildred Morrow 16 Store Tempora… 8 16 1914-02-02 1998-01-…
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## 17 984 French W… French Wilson 16 Store Tempora… 8 16 1914-02-02 1998-01-…
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## 18 983 Elisabet… Elisabeth Duncan 16 Store Tempora… 8 16 1914-02-02 1998-01-…
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## 19 982 Linda An… Linda Anderson 16 Store Tempora… 8 16 1914-02-02 1998-01-…
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## 20 981 Selene W… Selene Watson 16 Store Tempora… 8 16 1914-02-02 1998-01-…
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## # … with more rows, and 6 more variables: salary <chr>, supervisor_id <chr>, education_level <chr>,
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## # marital_status <chr>, gender <chr>, management_role <chr>
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mutate(db, position_title = tolower(position_title)) %>%
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mutate(salary = as.numeric(salary)) %>%
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mutate(gender = ifelse(gender == "F", "Female", "Male")) %>%
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mutate(marital_status = ifelse(marital_status == "S", "Single", "Married")) %>%
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group_by(supervisor_id) %>%
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summarise(underlings_count = n()) %>%
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collect()
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## # A tibble: 112 x 2
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## supervisor_id underlings_count
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## <chr> <dbl>
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## 1 0 1
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## 2 1 7
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## 3 5 9
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## 4 4 2
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## 5 2 3
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## 6 20 2
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## 7 21 4
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## 8 22 7
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## 9 6 4
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## 10 36 2
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## # … with 102 more rows
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```
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### REST API
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``` r
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dc <- drill_connection("localhost")
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drill_active(dc)
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## [1] TRUE
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drill_version(dc)
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## [1] "1.15.0"
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drill_storage(dc)$name
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## [1] "cp" "dfs" "drilldat" "hbase" "hdfs" "hive" "kudu" "mongo" "my" "s3"
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drill_query(dc, "SELECT * FROM cp.`employee.json` limit 100")
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## # A tibble: 100 x 16
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## employee_id full_name first_name last_name position_id position_title store_id department_id birth_date hire_date
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## <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
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## 1 1 Sheri No… Sheri Nowmer 1 President 0 1 1961-08-26 1994-12-…
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## 2 2 Derrick … Derrick Whelply 2 VP Country Ma… 0 1 1915-07-03 1994-12-…
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## 3 4 Michael … Michael Spence 2 VP Country Ma… 0 1 1969-06-20 1998-01-…
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## 4 5 Maya Gut… Maya Gutierrez 2 VP Country Ma… 0 1 1951-05-10 1998-01-…
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## 5 6 Roberta … Roberta Damstra 3 VP Informatio… 0 2 1942-10-08 1994-12-…
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## 6 7 Rebecca … Rebecca Kanagaki 4 VP Human Reso… 0 3 1949-03-27 1994-12-…
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## 7 8 Kim Brun… Kim Brunner 11 Store Manager 9 11 1922-08-10 1998-01-…
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## 8 9 Brenda B… Brenda Blumberg 11 Store Manager 21 11 1979-06-23 1998-01-…
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## 9 10 Darren S… Darren Stanz 5 VP Finance 0 5 1949-08-26 1994-12-…
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## 10 11 Jonathan… Jonathan Murraiin 11 Store Manager 1 11 1967-06-20 1998-01-…
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## # … with 90 more rows, and 6 more variables: salary <chr>, supervisor_id <chr>, education_level <chr>,
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## # marital_status <chr>, gender <chr>, management_role <chr>
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drill_query(dc, "SELECT COUNT(gender) AS gctFROM cp.`employee.json` GROUP BY gender")
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drill_options(dc)
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## # A tibble: 179 x 6
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## name value defaultValue accessibleScopes kind optionScope
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## <chr> <chr> <chr> <chr> <chr> <chr>
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## 1 debug.validate_iterators FALSE false ALL BOOLE… BOOT
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## 2 debug.validate_vectors FALSE false ALL BOOLE… BOOT
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## 3 drill.exec.functions.cast_empty_string_to_null FALSE false ALL BOOLE… BOOT
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## 4 drill.exec.hashagg.fallback.enabled FALSE false ALL BOOLE… BOOT
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## 5 drill.exec.hashjoin.fallback.enabled FALSE false ALL BOOLE… BOOT
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## 6 drill.exec.memory.operator.output_batch_size 16777216 16777216 SYSTEM LONG BOOT
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|
## 7 drill.exec.memory.operator.output_batch_size_avail_mem_fac… 0.1 0.1 SYSTEM DOUBLE BOOT
|
|
|
|
|
## 8 drill.exec.storage.file.partition.column.label dir dir ALL STRING BOOT
|
|
|
|
|
## 9 drill.exec.storage.implicit.filename.column.label filename filename ALL STRING BOOT
|
|
|
|
|
## 10 drill.exec.storage.implicit.filepath.column.label filepath filepath ALL STRING BOOT
|
|
|
|
|
## # … with 169 more rows
|
|
|
|
|
|
|
|
|
|
drill_options(dc, "json")
|
|
|
|
|
## # A tibble: 10 x 6
|
|
|
|
|
## name value defaultValue accessibleScopes kind optionScope
|
|
|
|
|
## <chr> <chr> <chr> <chr> <chr> <chr>
|
|
|
|
|
## 1 store.hive.maprdb_json.optimize_scan_with_native_reader FALSE false ALL BOOLEAN BOOT
|
|
|
|
|
## 2 store.json.all_text_mode TRUE false ALL BOOLEAN SYSTEM
|
|
|
|
|
## 3 store.json.extended_types TRUE false ALL BOOLEAN SYSTEM
|
|
|
|
|
## 4 store.json.read_numbers_as_double FALSE false ALL BOOLEAN BOOT
|
|
|
|
|
## 5 store.json.reader.allow_nan_inf TRUE true ALL BOOLEAN BOOT
|
|
|
|
|
## 6 store.json.reader.print_skipped_invalid_record_number TRUE false ALL BOOLEAN SYSTEM
|
|
|
|
|
## 7 store.json.reader.skip_invalid_records TRUE false ALL BOOLEAN SYSTEM
|
|
|
|
|
## 8 store.json.writer.allow_nan_inf TRUE true ALL BOOLEAN BOOT
|
|
|
|
|
## 9 store.json.writer.skip_null_fields TRUE true ALL BOOLEAN BOOT
|
|
|
|
|
## 10 store.json.writer.uglify TRUE false ALL BOOLEAN SYSTEM
|
|
|
|
|
```
|
|
|
|
|
|
|
|
|
|
## Working with parquet files
|
|
|
|
|
|
|
|
|
|
``` r
|
|
|
|
|
drill_query(dc, "SELECT * FROM dfs.`/usr/local/drill/sample-data/nation.parquet` LIMIT 5")
|
|
|
|
|
## # A tibble: 5 x 4
|
|
|
|
|
## N_NATIONKEY N_NAME N_REGIONKEY N_COMMENT
|
|
|
|
|
## <dbl> <chr> <dbl> <chr>
|
|
|
|
|
## 1 0 ALGERIA 0 haggle. carefully f
|
|
|
|
|
## 2 1 ARGENTINA 1 al foxes promise sly
|
|
|
|
|
## 3 2 BRAZIL 1 y alongside of the p
|
|
|
|
|
## 4 3 CANADA 1 eas hang ironic, sil
|
|
|
|
|
## 5 4 EGYPT 4 y above the carefull
|
|
|
|
|
```
|
|
|
|
|
|
|
|
|
|
Including multiple parquet files in different directories (note the
|
|
|
|
|
wildcard support):
|
|
|
|
|
|
|
|
|
|
``` r
|
|
|
|
|
drill_query(dc, "SELECT * FROM dfs.`/usr/local/drill/sample-data/nations*/nations*.parquet` LIMIT 5")
|
|
|
|
|
## # A tibble: 5 x 5
|
|
|
|
|
## dir0 N_NATIONKEY N_NAME N_REGIONKEY N_COMMENT
|
|
|
|
|
## <chr> <dbl> <chr> <dbl> <chr>
|
|
|
|
|
## 1 nationsSF 0 ALGERIA 0 haggle. carefully f
|
|
|
|
|
## 2 nationsSF 1 ARGENTINA 1 al foxes promise sly
|
|
|
|
|
## 3 nationsSF 2 BRAZIL 1 y alongside of the p
|
|
|
|
|
## 4 nationsSF 3 CANADA 1 eas hang ironic, sil
|
|
|
|
|
## 5 nationsSF 4 EGYPT 4 y above the carefull
|
|
|
|
|
```
|
|
|
|
|
|
|
|
|
|
### Drill has built-in support for spatial ops
|
|
|
|
|
|
|
|
|
|
Via: <https://github.com/k255/drill-gis>
|
|
|
|
|
|
|
|
|
|
A common use case is to select data within boundary of given polygon:
|
|
|
|
|
|
|
|
|
|
``` r
|
|
|
|
|
drill_query(dc, "
|
|
|
|
|
select columns[2] as city, columns[4] as lon, columns[3] as lat
|
|
|
|
|
from cp.`sample-data/CA-cities.csv`
|
|
|
|
|
where
|
|
|
|
|
ST_Within(
|
|
|
|
|
ST_Point(columns[4], columns[3]),
|
|
|
|
|
ST_GeomFromText(
|
|
|
|
|
'POLYGON((-121.95 37.28, -121.94 37.35, -121.84 37.35, -121.84 37.28, -121.95 37.28))'
|
|
|
|
|
)
|
|
|
|
|
)
|
|
|
|
|
")
|
|
|
|
|
## # A tibble: 7 x 3
|
|
|
|
|
## city lon lat
|
|
|
|
|
## <chr> <chr> <chr>
|
|
|
|
|
## 1 Burbank -121.9316233 37.3232752
|
|
|
|
|
## 2 San Jose -121.8949555 37.3393857
|
|
|
|
|
## 3 Lick -121.8457863 37.2871647
|
|
|
|
|
## 4 Willow Glen -121.8896771 37.3085532
|
|
|
|
|
## 5 Buena Vista -121.9166227 37.3213308
|
|
|
|
|
## 6 Parkmoor -121.9307898 37.3210531
|
|
|
|
|
## 7 Fruitdale -121.932746 37.31086
|
|
|
|
|
```
|
|
|
|
|
|
|
|
|
|
### sergeant Metrics
|
|
|
|
|
|
|
|
|
|
| Lang | \# Files | (%) | LoC | (%) | Blank lines | (%) | \# Lines | (%) |
|
|
|
|
|
| :--- | -------: | --: | --: | --: | ----------: | --: | -------: | --: |
|
|
|
|
|
| Rmd | 1 | 1 | 55 | 1 | 54 | 1 | 89 | 1 |
|
|
|
|
|
|
|
|
|
|
## Code of Conduct
|
|
|
|
|
|
|
|
|
|
Please note that this project is released with a Contributor Code of
|
|
|
|
|
Conduct By participating in this project you agree to
|
|
|
|
|
abide by its terms.
|
