diff --git a/.Rbuildignore b/.Rbuildignore index a170773..cc63673 100644 --- a/.Rbuildignore +++ b/.Rbuildignore @@ -1,3 +1,4 @@ +^LICENSE\.md$ ^\.travis\.yml$ ^cran-comments\.md$ ^.*\.Rproj$ @@ -5,3 +6,8 @@ ^codecov\.yml$ ^README\.Rmd$ ^README-.*\.png$ +^packrat/ +^\.Rprofile$ +^working/ +^appveyor\.yml$ +^revdep/ diff --git a/.gitattributes b/.gitattributes new file mode 100644 index 0000000..9ac575c --- /dev/null +++ b/.gitattributes @@ -0,0 +1,4 @@ +* text=auto +data/* binary +src/* text=lf +R/* text=lf \ No newline at end of file diff --git a/.gitignore b/.gitignore index 06900f1..5f977cb 100644 --- a/.gitignore +++ b/.gitignore @@ -6,3 +6,7 @@ inst/doc .Rproj.user *.Rproj .DS_Store +packrat/lib*/ +packrat/src/ +working/ +.Rprofile diff --git a/.travis.yml b/.travis.yml index 71ab1ee..ab2352e 100644 --- a/.travis.yml +++ b/.travis.yml @@ -4,8 +4,29 @@ language: R sudo: false cache: packages +os: + - linux + - osx + +r: +- oldrel +- release +- devel + +matrix: + allow_failures: + - r: devel + r_packages: - covr + +script: + - | + travis_wait 60 R CMD build --no-build-vignettes --no-manual --no-resave-data . + travis_wait 60 R CMD check --no-build-vignettes --no-manual tidyjson*tar.gz after_success: - Rscript -e 'library(covr); codecov()' + +after_script: + - ./travis-tool.sh dump_logs diff --git a/DESCRIPTION b/DESCRIPTION index 8707d93..372e7bc 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,8 +1,10 @@ Package: tidyjson Title: Tidy Complex JSON -Version: 0.2.1.9000 -Author: Jeremy Stanley -Maintainer: Jeremy Stanley +Version: 0.2.1.9001 +Authors@R: c( + person("Jeremy", "Stanley", , "jeremy.stanley@gmail.com", c("aut")), + person("Cole", "Arendt", , "cole@rstudio.com", c("aut", "cre")) + ) Description: Turn complex JSON data into tidy data frames. Depends: R (>= 3.1.0) @@ -21,15 +23,15 @@ Suggests: testthat, ggplot2, rmarkdown, - needs, forcats, wordcloud, viridis, listviewer, igraph, RColorBrewer, - covr + covr, + lubridate VignetteBuilder: knitr -URL: https://github.com/jeremystan/tidyjson -BugReports: https://github.com/jeremystan/tidyjson/issues -RoxygenNote: 5.0.1 +URL: https://github.com/colearendt/tidyjson +BugReports: https://github.com/colearendt/tidyjson/issues +RoxygenNote: 6.1.1 diff --git a/LICENSE b/LICENSE index 885a25b..3a8e5d6 100644 --- a/LICENSE +++ b/LICENSE @@ -1,2 +1,2 @@ -YEAR: 2016 -COPYRIGHT HOLDER: Jeremy Stanley \ No newline at end of file +YEAR: 2019 +COPYRIGHT HOLDER: Jeremy Stanley, Cole Arendt diff --git a/LICENSE.md b/LICENSE.md new file mode 100644 index 0000000..51f1ede --- /dev/null +++ b/LICENSE.md @@ -0,0 +1,21 @@ +# MIT License + +Copyright (c) 2019 Jeremy Stanley, Cole Arendt + +Permission is hereby granted, free of charge, to any person obtaining a copy +of this software and associated documentation files (the "Software"), to deal +in the Software without restriction, including without limitation the rights +to use, copy, modify, merge, publish, distribute, sublicense, and/or sell +copies of the Software, and to permit persons to whom the Software is +furnished to do so, subject to the following conditions: + +The above copyright notice and this permission notice shall be included in all +copies or substantial portions of the Software. + +THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR +IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, +FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE +AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER +LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, +OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE +SOFTWARE. diff --git a/NAMESPACE b/NAMESPACE index 9c28847..6be89c3 100644 --- a/NAMESPACE +++ b/NAMESPACE @@ -1,20 +1,28 @@ # Generated by roxygen2: do not edit by hand S3method("[",tbl_json) +S3method(arrange,tbl_json) S3method(arrange_,tbl_json) S3method(as.character,tbl_json) S3method(as.tbl_json,character) S3method(as.tbl_json,data.frame) S3method(as.tbl_json,tbl_json) +S3method(as_tibble,tbl_json) +S3method(filter,tbl_json) S3method(filter_,tbl_json) +S3method(mutate,tbl_json) S3method(mutate_,tbl_json) S3method(print,tbl_json) +S3method(slice,tbl_json) S3method(slice_,tbl_json) export("%>%") export(append_values_logical) export(append_values_number) export(append_values_string) export(as.tbl_json) +export(as_data_frame) +export(as_tibble) +export(bind_rows) export(enter_object) export(gather_array) export(gather_keys) diff --git a/NEWS.md b/NEWS.md index 4a33088..c48b035 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,4 +1,31 @@ -# purrr 0.2.1.9000 +# tidyjson 0.2.1.9001 + +## New functions + +* Add `bind_rows()` support. Though currently not an S3 implementation, it behaves as much like the `dplyr` variant as possible, preserving the `attr(.,'JSON')` components if all components are `tbl_json` objects. (#58) + +## Documentation Changes + +* "Using Multiple APIs" vignette added to show support for using tidyjson with multiple APIs (#85) + +* Updated README.md to better explain `spread_all()` (#92) + +## Bug fixes and minor changes + +* `DROP=TRUE` caused an error. Altered behavior to be consistent with `tbl_df` + +* Fix `spread_all(recursive=FALSE)` bug that caused an error (#65) + +* Alter `spread_all()` behavior to recursively check for deduplication of names (and thus avoid an error) (#76) + +* Add named support for the `NSE` versions of dplyr functions (`filter()`,`mutate()`,`slice()`, etc.) since the `SE` variants are no longer called behind-the-scenes since `dplyr 0.6.0`. (#97) + +* Fix errors with `print.tbl_json()` when the JSON attribute is missing + +* Fix json_structure() failure if `document.id` missing by imputing +the missing `document.id`. (#86) + +# tidyjson 0.2.1.9000 ## New functions @@ -30,9 +57,9 @@ * `tbl_json` objects now print with a tidy character representation of the JSON attribute (#61) -* Use [purrr](https://github.com/jeremystan/purrr) for most list based internal operations (#1) +* Use [purrr](https://github.com/tidyverse/purrr) for most list based internal operations (#1) -* Use [tidyr](https://github.com/hadley/tidyr) for `gather_array` and `gather_object` functions (#28) +* Use [tidyr](https://github.com/tidyverse/tidyr) for `gather_array` and `gather_object` functions (#28) * Imported the magrittr `%>%` operator (#17) @@ -46,7 +73,7 @@ ## Other changes -* Migrated development to [jeremystan](https://github.com/jeremystan/tidyjson) from [sailthru](https://github.com/sailthru/tidyjson) +* Migrated development to [colearendt](https://github.com/colearendt/tidyjson) from [jeremystan](https://github.com/jeremystan/tidyjson) and [sailthru](https://github.com/sailthru/tidyjson) ## Deprecated functions diff --git a/R/append_values.R b/R/append_values.R index 6b63e4e..ae6289a 100644 --- a/R/append_values.R +++ b/R/append_values.R @@ -52,12 +52,12 @@ append_values_factory <- function(type, as.value) { if (!is.tbl_json(.x)) .x <- as.tbl_json(.x) - if (force == FALSE) assert_that(recursive == FALSE) + if (force == FALSE) assertthat::assert_that(recursive == FALSE) # Extract json json <- attr(.x, "JSON") - assert_that(length(json) == nrow(.x)) + assertthat::assert_that(length(json) == nrow(.x)) # if json is empty, return empty if (length(json) == 0) { @@ -78,7 +78,7 @@ append_values_factory <- function(type, as.value) { new_val[loc] <- NA } new_val <- new_val %>% as.value - assert_that(length(new_val) == nrow(.x)) + assertthat::assert_that(length(new_val) == nrow(.x)) .x[column.name] <- new_val } @@ -92,7 +92,7 @@ append_values_factory <- function(type, as.value) { #' @param l a list that we want to unlist #' @param recursive logical indicating whether to unlist nested lists my_unlist <- function(l, recursive = FALSE) { - nulls <- map_int(l, length) != 1 + nulls <- purrr::map_int(l, length) != 1 l[nulls] <- NA unlist(l, recursive = recursive) } diff --git a/R/enter_object.R b/R/enter_object.R index f1fc4fc..10ea55f 100644 --- a/R/enter_object.R +++ b/R/enter_object.R @@ -16,7 +16,7 @@ #' #' @seealso \code{\link{gather_object}} to find sub-objects that could be #' entered into, \code{\link{gather_array}} to gather an array in an object -#' and \code{\link{spread_all}} to spread values in an object. +#' and \code{\link{spread_all}} or \code{\link{spread_values}} to spread values in an object. #' @param .x a json string or tbl_json object #' @param ... a quoted or unquoted sequence of strings designating the object #' name or sequences of names you wish to enter @@ -71,7 +71,7 @@ enter_object <- function(.x, ...) { json <- attr(.x, "JSON") # Access path - json <- map(json, path %>% as.list) + json <- purrr::map(json, path %>% as.list) tbl_json(.x, json, drop.null.json = TRUE) diff --git a/R/gather.R b/R/gather.R index dccc857..22ec8cd 100644 --- a/R/gather.R +++ b/R/gather.R @@ -12,8 +12,8 @@ gather_factory <- function(default.column.name, default.column.empty, function(.x, column.name = default.column.name) { - assert_that(!("..name" %in% names(.x))) - assert_that(!("..json" %in% names(.x))) + assertthat::assert_that(!("..name" %in% names(.x))) + assertthat::assert_that(!("..json" %in% names(.x))) if (!is.tbl_json(.x)) .x <- as.tbl_json(.x) @@ -36,13 +36,13 @@ gather_factory <- function(default.column.name, default.column.empty, stop(sprintf("%s records are not %ss", sum(bad_type), required.type)) y <- .x %>% - tbl_df %>% - mutate( - ..name = json %>% map(expand.fun), + dplyr::as_tibble() %>% + dplyr::mutate( + ..name = json %>% purrr::map(expand.fun), ..json = json %>% - map(~data_frame(..json = as.list(.))) + purrr::map(~dplyr::data_frame(..json = as.list(.))) ) %>% - unnest(..name, ..json, .drop = FALSE) + tidyr::unnest(..name, ..json, .drop = FALSE) # Check to see if column.name exists, otherwise, increment until not if (column.name %in% names(y)) { @@ -58,10 +58,10 @@ gather_factory <- function(default.column.name, default.column.empty, } # Rename - y <- y %>% rename_(.dots = setNames("..name", column.name)) + y <- y %>% dplyr::rename_(.dots = setNames("..name", column.name)) # Construct tbl_json - tbl_json(y %>% select(-..json), y$..json) + tbl_json(y %>% dplyr::select(-..json), y$..json) } diff --git a/R/is_json.R b/R/is_json.R index 3389ebf..914ef19 100644 --- a/R/is_json.R +++ b/R/is_json.R @@ -46,15 +46,15 @@ NULL #' @rdname is_json #' @export -is_json_string <- is_json_factory("string") +is_json_string <- is_json_factory('string') #' @rdname is_json #' @export -is_json_number <- is_json_factory("number") +is_json_number <- is_json_factory('number') #' @rdname is_json #' @export -is_json_logical <- is_json_factory("logical") +is_json_logical <- is_json_factory('logical') #' @rdname is_json #' @export diff --git a/R/json_complexity.R b/R/json_complexity.R index e449af9..a5378e2 100644 --- a/R/json_complexity.R +++ b/R/json_complexity.R @@ -35,7 +35,7 @@ json_complexity <- function(.x, column.name = "complexity") { json <- attr(.x, "JSON") # Determine lengths - lengths <- json %>% map(unlist, recursive = TRUE) %>% map_int(length) + lengths <- json %>% purrr::map(unlist, recursive = TRUE) %>% purrr::map_int(length) # Add as a column to x .x[column.name] <- lengths diff --git a/R/json_lengths.R b/R/json_lengths.R index fee44aa..8c98c0f 100644 --- a/R/json_lengths.R +++ b/R/json_lengths.R @@ -36,7 +36,7 @@ json_lengths <- function(.x, column.name = "length") { json <- attr(.x, "JSON") # Determine lengths - lengths <- map_int(json, length) + lengths <- purrr::map_int(json, length) # Add as a column to x .x[column.name] <- lengths diff --git a/R/json_schema.R b/R/json_schema.R index 71d3d87..37aa341 100644 --- a/R/json_schema.R +++ b/R/json_schema.R @@ -74,7 +74,7 @@ json_schema <- function(.x, type = c("string", "value")) { if (any(is_array)) { - array_schema <- json[is_array] %>% map(json_schema_array, type) + array_schema <- json[is_array] %>% purrr::map(json_schema_array, type) array_schema <- array_schema %>% unlist(recursive = FALSE) %>% @@ -88,11 +88,11 @@ json_schema <- function(.x, type = c("string", "value")) { if (any(is_object)) { - object_schema <- json[is_object] %>% map(json_schema_object, type) + object_schema <- json[is_object] %>% purrr::map(json_schema_object, type) object_schema <- object_schema %>% bind_rows %>% - tbl_df %>% + dplyr::as_tibble() %>% unique object_schema <- collapse_object(object_schema) @@ -124,7 +124,7 @@ json_schema <- function(.x, type = c("string", "value")) { list_to_tbl_json <- function(l) { - tbl_json(data_frame(document.id = 1L), list(l)) + tbl_json(dplyr::data_frame(document.id = 1L), list(l)) } @@ -143,15 +143,15 @@ json_schema_array <- function(json, type) { collapse_array <- function(schema) { - data_frame(schemas = schema) %>% - mutate(json = schemas) %>% + dplyr::data_frame(schemas = schema) %>% + dplyr::mutate(json = schemas) %>% as.tbl_json(json.column = "json") %>% json_types %>% json_complexity %>% - tbl_df %>% - arrange(desc(complexity), type) %>% - slice(1) %>% - extract2("schemas") %>% + dplyr::as_tibble() %>% + dplyr::arrange(desc(complexity), type) %>% + dplyr::slice(1) %>% + magrittr::extract2("schemas") %>% paste(collapse = ", ") %>% sprintf("[%s]", .) @@ -161,10 +161,10 @@ json_schema_object <- function(json, type) { x <- json %>% list_to_tbl_json %>% gather_object - x$schemas <- attr(x, "JSON") %>% map(list_to_tbl_json) %>% - map_chr(json_schema, type) + x$schemas <- attr(x, "JSON") %>% purrr::map(list_to_tbl_json) %>% + purrr::map_chr(json_schema, type) - schemas <- x %>% select(name, schemas) %>% unique + schemas <- x %>% dplyr::select(name, schemas) %>% unique schemas @@ -173,18 +173,18 @@ json_schema_object <- function(json, type) { collapse_object <- function(schema) { schema %>% - mutate(json = schemas) %>% + dplyr::mutate(json = schemas) %>% as.tbl_json(json.column = "json") %>% json_types %>% json_complexity %>% - tbl_df %>% - group_by(name) %>% - arrange(desc(complexity), type) %>% - slice(1) %>% - ungroup %>% - mutate(name = name %>% sprintf('"%s"', .)) %>% - mutate(schemas = map2(name, schemas, paste, sep = ": ")) %>% - extract2("schemas") %>% + dplyr::as_tibble() %>% + dplyr::group_by(name) %>% + dplyr::arrange(desc(complexity), type) %>% + dplyr::slice(1) %>% + dplyr::ungroup() %>% + dplyr::mutate(name = name %>% sprintf('"%s"', .)) %>% + dplyr::mutate(schemas = map2(name, schemas, paste, sep = ": ")) %>% + magrittr::extract2("schemas") %>% paste(collapse = ", ") %>% sprintf("{%s}", .) diff --git a/R/json_structure.R b/R/json_structure.R index 73d53a8..dc25a30 100644 --- a/R/json_structure.R +++ b/R/json_structure.R @@ -69,9 +69,9 @@ json_structure <- function(.x) { this_level <- 0L while(structure %>% should_json_structure_expand_more(this_level)) { - structure <- rbind_tbl_json( + structure <- bind_rows( structure, - json_structure_level(structure %>% filter(level == this_level)) + json_structure_level(structure %>% dplyr::filter(level == this_level)) ) this_level <- this_level + 1L @@ -84,8 +84,13 @@ json_structure <- function(.x) { json_structure_init <- function(x) { + if (!'document.id' %in% names(x)) { + x <- x %>% dplyr::mutate( + document.id=row_number() + ) + } x %>% - mutate( + dplyr::mutate( parent.id = NA_character_, level = 0L, index = 1L, @@ -101,18 +106,18 @@ json_structure_init <- function(x) { should_json_structure_expand_more <- function(s, this.level) { s %>% - filter(level == this.level) %>% + dplyr::filter(level == this.level) %>% json_lengths %>% - filter(type %in% c("object", "array") & length > 0) %>% + dplyr::filter(type %in% c("object", "array") & length > 0) %>% nrow %>% - is_greater_than(0L) + magrittr::is_greater_than(0L) } json_structure_empty <- function() { tbl_json( - data_frame( + dplyr::data_frame( document.id = integer(0), parent.id = character(0), level = integer(0), @@ -131,10 +136,11 @@ json_structure_empty <- function() { json_structure_level <- function(s) { new_s <- json_structure_empty() + new_s <- new_s %>% dplyr::select_(.dots=names(s)[names(s) %in% names(new_s)]) # Expand any objects if (any(s$type == "object")) { - new_s <- rbind_tbl_json( + new_s <- bind_rows( new_s, s %>% json_structure_objects ) @@ -142,7 +148,7 @@ json_structure_level <- function(s) { # Expand any arrays if (any(s$type == "array")) { - new_s <- rbind_tbl_json( + new_s <- bind_rows( new_s, s %>% json_structure_arrays ) @@ -153,14 +159,14 @@ json_structure_level <- function(s) { } json_structure_objects <- function(s) { - + expand_s <- s %>% - filter(type == "object") %>% - transmute( - document.id, - parent.id = child.id, - seq, - level = level + 1L + dplyr::filter(type == "object") %>% + dplyr::transmute( + document.id + , parent.id=child.id + , seq + , level=level + 1L ) %>% gather_object %>% json_types %>% @@ -168,15 +174,23 @@ json_structure_objects <- function(s) { # Create rest of data frame df_s <- expand_s %>% - group_by(parent.id) %>% - mutate(index = 1L:n()) %>% - ungroup %>% - mutate( + dplyr::group_by(parent.id) %>% + dplyr::mutate(index = 1L:n()) %>% + dplyr::ungroup() %>% + dplyr::mutate( child.id = paste(parent.id, index, sep = "."), - seq = map2(seq, name, c) + seq = purrr::map2(seq, name, c) ) %>% - select( - document.id, parent.id, level, index, child.id, seq, name, type, length + dplyr::select( + document.id + , parent.id + , level + , index + , child.id + , seq + , name + , type + , length ) # Reconstruct tbl_json object @@ -185,25 +199,32 @@ json_structure_objects <- function(s) { } json_structure_arrays <- function(s) { - - s %>% - filter(type == "array") %>% - transmute( - document.id, - parent.id = child.id, - seq, - level = level + 1L + + s <- s %>% + dplyr::filter(type == "array") %>% + dplyr::transmute( + document.id + , parent.id=child.id + , seq + , level=level + 1L ) %>% gather_array("index") %>% json_types %>% json_lengths %>% - mutate( + dplyr::mutate( child.id = paste(parent.id, index, sep = "."), - seq = map2(seq, index, c) + seq = purrr::map2(seq, index, c) ) %>% - transmute( - document.id, parent.id, level, index, child.id, - seq, name = NA_character_, type, length + dplyr::transmute( + document.id + , parent.id + , level + , index + , child.id + , seq + , name=NA_character_ + , type + , length ) } diff --git a/R/json_types.R b/R/json_types.R index 9e3e222..9994b41 100644 --- a/R/json_types.R +++ b/R/json_types.R @@ -50,10 +50,10 @@ allowed_json_types <- determine_types <- function(json_list) { # Get classes - classes <- map_chr(json_list, class) + classes <- purrr::map_chr(json_list, class) # Check existence of names - names <- map_lgl(json_list, function(x) !is.null(attr(x, "names"))) + names <- purrr::map_lgl(json_list, function(x) !is.null(attr(x, "names"))) # Check if it's a list is_list <- classes == "list" diff --git a/R/path.R b/R/path.R index 595e863..cbf28aa 100644 --- a/R/path.R +++ b/R/path.R @@ -16,7 +16,7 @@ path <- function(...) { } structure( - map_chr(dots, as.character), + purrr::map_chr(dots, as.character), class = "path" ) } diff --git a/R/spread_all.R b/R/spread_all.R index 85bf6da..c0f5776 100644 --- a/R/spread_all.R +++ b/R/spread_all.R @@ -54,14 +54,14 @@ spread_all <- function(.x, recursive = TRUE, sep = ".") { reserved_cols <- c("..id", "..name1", "..name2", "..type", "..value", "..suffix") - assert_that(!(any(reserved_cols %in% names(.x)))) + assertthat::assert_that(!(any(reserved_cols %in% names(.x)))) # Return .x if no rows if (nrow(.x) == 0) return(.x) # Check if any objects - unq_types <- .x %>% json_types("..type") %>% extract2("..type") %>% unique + unq_types <- .x %>% json_types("..type") %>% magrittr::extract2("..type") %>% unique if (!("object" %in% unq_types)) { warning("no JSON records are objects, returning .x") return(.x) @@ -74,68 +74,74 @@ spread_all <- function(.x, recursive = TRUE, sep = ".") { json <- attr(.x, "JSON") # Create a new identifier - .x <- .x %>% mutate(..id = seq_len(n())) + .x <- .x %>% dplyr::mutate(..id = seq_len(n())) # gather types y <- .x %>% gather_object("..name1") %>% json_types("..type") - if (recursive) + if (recursive) { while(any(y$..type == "object")) y <- rbind_tbl_json( - y %>% filter(..type != "object"), + y %>% dplyr::filter(..type != "object"), recursive_gather(y, sep) ) + } else { + y <- y %>% dplyr::filter(..type != 'object') + } + # Look for duplicate keys - key_freq <- y %>% group_by(..id, ..name1) %>% tally + key_freq <- y %>% dplyr::group_by(..id, ..name1) %>% dplyr::tally() - if (any(key_freq$n > 1) || any(key_freq$..name1 %in% exist_cols)) { + while (any(key_freq$n > 1) || any(key_freq$..name1 %in% exist_cols)) { warning("results in duplicate column names, appending .# for uniqueness") # Deal with duplicate keys y_dedupe <- y %>% - group_by(..id, ..name1) %>% - mutate(..suffix = 1L:n()) %>% - mutate(..suffix = ..suffix + ifelse(..name1 %in% exist_cols, 1L, 0L)) %>% - mutate(..suffix = ifelse(..suffix == 1L, "", paste0(".", ..suffix))) %>% - ungroup %>% - mutate(..name1 = paste0(..name1, ..suffix)) %>% - select(-..suffix) + dplyr::group_by(..id, ..name1) %>% + dplyr::mutate(..suffix = 1L:n()) %>% + dplyr::mutate(..suffix = ..suffix + ifelse(..name1 %in% exist_cols, 1L, 0L)) %>% + dplyr::mutate(..suffix = ifelse(..suffix == 1L, "", paste0(".", ..suffix))) %>% + dplyr::ungroup() %>% + dplyr::mutate(..name1 = paste0(..name1, ..suffix)) %>% + dplyr::select(-..suffix) # Re-attach JSON y <- tbl_json(y_dedupe, attr(y, "JSON")) + key_freq <- y %>% dplyr::group_by(..id, ..name1) %>% dplyr::tally() } name_order <- y %>% - filter(..type %in% c("string", "number", "logical", "null")) %>% - extract2("..name1") %>% + dplyr::filter(..type %in% c("string", "number", "logical", "null")) %>% + magrittr::extract2("..name1") %>% unique y_string <- spread_type(y, "string", append_values_string) y_number <- spread_type(y, "number", append_values_number) y_logical <- spread_type(y, "logical", append_values_logical) - z <- .x %>% - left_join(y_string, by = "..id") %>% - left_join(y_number, by = "..id") %>% - left_join(y_logical, by = "..id") + ## Build data_frame component + z <- dplyr::as_tibble(.x) %>% + dplyr::left_join(y_string, by = "..id") %>% + dplyr::left_join(y_number, by = "..id") %>% + dplyr::left_join(y_logical, by = "..id") all_null <- y %>% - group_by(..name1) %>% - summarize(all.null = all(..type == "null")) %>% - filter(all.null) + dplyr::group_by(..name1) %>% + dplyr::summarize(all.null = all(..type == "null")) %>% + dplyr::filter(all.null) if (nrow(all_null) > 0) { - null_names <- all_null %>% extract2("..name1") + null_names <- all_null %>% magrittr::extract2("..name1") z[, null_names] <- NA } final_columns <- names(.x) %>% - setdiff("..id") %>% + dplyr::setdiff("..id") %>% c(name_order) z[, final_columns, drop = FALSE] %>% @@ -147,10 +153,10 @@ spread_all <- function(.x, recursive = TRUE, sep = ".") { recursive_gather <- function(.x, sep) { .x %>% - filter(..type == "object") %>% + dplyr::filter(..type == "object") %>% gather_object("..name2") %>% - mutate(..name1 = paste(..name1, ..name2, sep = sep)) %>% - select(-..type, -..name2) %>% + dplyr::mutate(..name1 = paste(..name1, ..name2, sep = sep)) %>% + dplyr::select(-..type, -..name2) %>% json_types("..type") } @@ -161,13 +167,13 @@ spread_type <- function(.x, this.type, append.fun) { any_type <- any(.x$..type == this.type) if (!any_type) - return(data_frame(..id = integer(0))) + return(dplyr::data_frame(..id = integer(0))) .x %>% - filter(..type == this.type) %>% + dplyr::filter(..type == this.type) %>% append.fun("..value") %>% - tbl_df %>% - select(..id, ..name1, ..value) %>% - spread(..name1, ..value) + dplyr::as_tibble() %>% + dplyr::select(..id, ..name1, ..value) %>% + tidyr::spread(..name1, ..value) } diff --git a/R/spread_values.R b/R/spread_values.R index 667dc02..e451406 100644 --- a/R/spread_values.R +++ b/R/spread_values.R @@ -43,7 +43,7 @@ #' ) #' #' # Another document, this time with a middle name (and no age) -#' json2 <- '{"name": {"first": "Ann", "middle": "A", "last": "Smith"}, "age": 23}' +#' json2 <- '{"name": {"first": "Ann", "middle": "A", "last": "Smith"}}' #' #' # spread_values still gives the same column structure #' c(json, json2) %>% @@ -67,7 +67,7 @@ spread_values <- function(.x, ...) { new_values <- invoke_map(lst(...), .x = list(NULL), json) # Add on new values - y <- bind_cols(.x, new_values) + y <- dplyr::bind_cols(.x, new_values) tbl_json(y, json) @@ -76,7 +76,7 @@ spread_values <- function(.x, ...) { #' Factory that creates the j* functions below #' #' @param map.function function to map to collapse -jfactory <- function(map.function) { +json_factory <- function(map.function) { replace_nulls_na <- function(x) if (is.null(x)) NA else x @@ -91,8 +91,8 @@ jfactory <- function(map.function) { function(json) { json %>% - map(path %>% as.list) %>% - map(replace_nulls_na) %>% + purrr::map(path %>% as.list) %>% + purrr::map(replace_nulls_na) %>% map.function(recursive.fun) } @@ -108,7 +108,7 @@ jfactory <- function(map.function) { #' #' @seealso \code{\link{spread_values}} for using these functions to spread #' the values of a JSON object into new columns -#' @name jfunctions +#' @name json_functions #' @param ... a quoted or unquoted sequence of strings designating the object #' name sequence you wish to follow to find a value #' @param recursive logical indicating whether second level and beyond objects @@ -117,14 +117,14 @@ jfactory <- function(map.function) { #' @return a function that can operate on parsed JSON data NULL -#' @rdname jfunctions +#' @rdname json_functions #' @export -jstring <- jfactory(map_chr) +jstring <- json_factory(map_chr) -#' @rdname jfunctions +#' @rdname json_functions #' @export -jnumber <- jfactory(map_dbl) +jnumber <- json_factory(map_dbl) -#' @rdname jfunctions +#' @rdname json_functions #' @export -jlogical <- jfactory(map_lgl) +jlogical <- json_factory(map_lgl) diff --git a/R/tbl_json.R b/R/tbl_json.R index c9de32c..db5c1b4 100644 --- a/R/tbl_json.R +++ b/R/tbl_json.R @@ -66,28 +66,29 @@ NULL #' gather_array %>% spread_all tbl_json <- function(df, json.list, drop.null.json = FALSE) { - assert_that(is.data.frame(df)) - assert_that(is.list(json.list) || is.vector(json.list)) - assert_that(nrow(df) == length(json.list)) - assert_that(!("..JSON" %in% names(df))) + assertthat::assert_that(is.data.frame(df)) + assertthat::assert_that(is.list(json.list) || is.vector(json.list)) + assertthat::assert_that(nrow(df) == length(json.list)) + assertthat::assert_that(!("..JSON" %in% names(df))) # Remove any row.names row.names(df) <- NULL # Remove any rows of df where json.list is NULL if (drop.null.json) { - nulls <- map_lgl(json.list, is.null) + nulls <- purrr::map_lgl(json.list, is.null) df <- df[!nulls, , drop = FALSE] json.list <- json.list[!nulls] } - structure(df, JSON = json.list, class = c("tbl_json", "tbl", "data.frame")) + structure(df, JSON = json.list, class = c("tbl_json", "tbl_df", "tbl", "data.frame")) } #' @export #' @rdname tbl_json as.tbl_json <- function(.x, ...) UseMethod("as.tbl_json") + #' @export #' @rdname tbl_json as.tbl_json.tbl_json <- function(.x, ...) .x @@ -97,7 +98,7 @@ as.tbl_json.tbl_json <- function(.x, ...) .x as.tbl_json.character <- function(.x, ...) { # Parse the json - json <- map(.x, fromJSON, simplifyVector = FALSE) + json <- purrr::map(.x, jsonlite::fromJSON, simplifyVector = FALSE) # Setup document ids ids <- data.frame(document.id = seq_along(json)) @@ -110,11 +111,11 @@ as.tbl_json.character <- function(.x, ...) { #' @rdname tbl_json as.tbl_json.data.frame <- function(.x, json.column, ...) { - assert_that(is.character(json.column)) - assert_that(json.column %in% names(.x)) + assertthat::assert_that(is.character(json.column)) + assertthat::assert_that(json.column %in% names(.x)) # Parse the json - json <- map(.x[[json.column]], fromJSON, simplifyVector = FALSE) + json <- purrr::map(.x[[json.column]], jsonlite::fromJSON, simplifyVector = FALSE) # Remove json column .x <- .x[, setdiff(names(.x), json.column), drop = FALSE] @@ -140,20 +141,13 @@ is.tbl_json <- function(.x) inherits(.x, "tbl_json") #' @return a \code{\link{tbl_json}} object #' @export `[.tbl_json` <- function(.x, i, j, - drop = if (missing(i)) TRUE else length(cols) == 1) { - - # Same functionality as in `[.data.frame` - y <- NextMethod("[") - cols <- names(y) + drop = FALSE) { # Extract JSON to subset later json <- attr(.x, "JSON") - - # Convert x back into a data.frame - .x <- as.data.frame(.x) - + # Subset x - .x <- `[.data.frame`(.x, i, j, drop) + .x <- NextMethod('[') # If i is not missing, subset json as well if (!missing(i)) { @@ -177,10 +171,10 @@ wrap_dplyr_verb <- function(dplyr.verb) { .data$..JSON <- attr(.data, "JSON") # Apply the transformation - y <- dplyr.verb(tbl_df(.data), ...) + y <- dplyr.verb(dplyr::as_tibble(.data), ...) # Reconstruct tbl_json without ..JSON column - tbl_json(select_(y, "-..JSON"), y$..JSON) + tbl_json(dplyr::select_(y, "-..JSON"), y$..JSON) } } @@ -188,15 +182,73 @@ wrap_dplyr_verb <- function(dplyr.verb) { #' @export filter_.tbl_json <- wrap_dplyr_verb(dplyr::filter_) +#' @export +#' @method filter tbl_json +filter.tbl_json <- wrap_dplyr_verb(dplyr::filter) + #' @export arrange_.tbl_json <- wrap_dplyr_verb(dplyr::arrange_) +#' @export +#' @method arrange tbl_json +arrange.tbl_json <- wrap_dplyr_verb(dplyr::arrange) + #' @export mutate_.tbl_json <- wrap_dplyr_verb(dplyr::mutate_) +#' @export +#' @method mutate tbl_json +mutate.tbl_json <- wrap_dplyr_verb(dplyr::mutate) + #' @export slice_.tbl_json <- wrap_dplyr_verb(dplyr::slice_) +#' @export +#' @method slice tbl_json +slice.tbl_json <- wrap_dplyr_verb(dplyr::slice) + +#' +#' Bind Rows (tidyjson) +#' +#' Since bind_rows is not currently an s3 method, this function +#' is meant to mask dplyr::bind_rows (although it is called directly). +#' +#' @return If all parameters are `tbl_json` objects, then the JSON attributes +#' will be stacked and a `tbl_json` will be returned. Otherwise, +#' `dplyr::bind_rows` is used, a message is displayed, +#' and a `tbl_df` is returned. +#' +#' @seealso [Related dplyr issue](https://github.com/tidyverse/dplyr/issues/2457) +#' @seealso \code{\link[dplyr]{bind_rows}} +#' +#' @param ... Values passed on to dplyr::bind_rows +#' +#' @examples +#' +#' ## Simple example +#' a <- as.tbl_json('{"a": 1, "b": 2}') +#' b <- as.tbl_json('{"a": 3, "b": 4}') +#' +#' bind_rows(a,b) %>% spread_values(a=jnumber(a),b=jnumber(b)) +#' +#' ## as a list +#' bind_rows(list(a,b)) %>% spread_all() +#' +#' @export +#' +bind_rows <- function(...) { + r <- dplyr::bind_rows(...) + + d <- list_or_dots(...) + if (all(unlist(lapply(d,is.tbl_json)))) { + j <- unlist(lapply(d, attr, 'JSON'), recursive=FALSE) + return(tbl_json(r,j)) + } else { + message('Some non-tbl_json objects. Reverting to dplyr::bind_rows') + return(dplyr::as_tibble(r)) + } +} + #' Convert the JSON in an tbl_json object back to a JSON string #' #' @param x a tbl_json object @@ -206,12 +258,45 @@ slice_.tbl_json <- wrap_dplyr_verb(dplyr::slice_) as.character.tbl_json <- function(x, ...) { json <- attr(x, "JSON") - json %>% map_chr(jsonlite::toJSON, + if (is.null(json)) { + warning("attr(.,'JSON') has been removed from this tbl_json object") + json <- list() + } + json %>% purrr::map_chr(jsonlite::toJSON, null = "null", auto_unbox = TRUE) } +#' Convert a tbl_json back to a tbl_df +#' +#' Drops the JSON attribute and the tbl_json class, so that +#' we are back to a pure tbl_df. Useful for some internals. Also useful +#' when you are done processing the JSON portion of your data and are +#' ready to move on to other tools. +#' +#' Note that as.tbl calls tbl_df under the covers, which in turn +#' calls as_data_frame. As a result, this should take care of all cases. +#' +#' @param x a tbl_json object +#' @param ... additional parameters +#' @return a tbl_df object (with no tbl_json component) +#' +#' @export +as_tibble.tbl_json <- function(x, ...) { + attr(x,'JSON') <- NULL + as_tibble( + structure(x, class = class(tibble::tibble())) + ) +} + +#' @rdname as_tibble.tbl_json +as_data_frame.tbl_json <- function(x, ...) { + as_tibble.tbl_json(x,...) +} + + + #' Print a tbl_json object #' #' @param x a \code{\link{tbl_json}} object @@ -226,12 +311,12 @@ print.tbl_json <- function(x, ..., json.n = 20, json.width = 15) { json <- json[seq_len(min(json.n, nrow(x)))] # Truncate json - lengths <- json %>% nchar + lengths <- dplyr::coalesce(json %>% nchar,0L) json <- json %>% strtrim(json.width) json[lengths > json.width] <- paste0(json[lengths > json.width], "...") # Add the json - .y <- tbl_df(x) + .y <- dplyr::as_tibble(x) json_name <- 'attr(., "JSON")' .y[json_name] <- rep("...", nrow(x)) .y[[json_name]][seq_len(length(json))] <- json diff --git a/R/utils.R b/R/utils.R index 779292e..4fa9c2f 100644 --- a/R/utils.R +++ b/R/utils.R @@ -3,10 +3,30 @@ #' @name %>% #' @rdname pipe #' @keywords internal -#' @export #' @importFrom magrittr %>% #' @usage lhs \%>\% rhs -NULL +#' @export +magrittr::`%>%` + +#' Convert object to tbl_df +#' +#' Exported from dplyr package. Converts an object +#' to a pure tibble (revert to tbl_df class and drops +#' tbl_json class/attributes). +#' +#' @name as_tibble +#' @rdname as_tibble +#' @aliases as_data_frame +#' @aliases tbl_df +#' @seealso as_tibble.tbl_json +#' @keywords internal +#' @export +#' @usage as_tibble(data) +dplyr::as_tibble + +#' @export +#' @rdname as_tibble +dplyr::as_data_frame #' Bind two tbl_json objects together and preserve JSON attribute #' @@ -16,8 +36,71 @@ NULL rbind_tbl_json <- function(x, y) { tbl_json( - bind_rows(x %>% unclass, y %>% unclass), + dplyr::bind_rows(x %>% unclass, y %>% unclass), c(attr(x, "JSON"), attr(y, "JSON")) ) } + + +#' List or Dots +#' +#' Handles dots or a list, coercing into a list +#' so that the output is easy to handle +#' +#' @param ... Either a list or the `...` of a function call +#' +#' @return The input object coerced into a list for easier use +list_or_dots <- function (...) +{ + dots <- list(...) + data_lists <- vapply(dots, is_data_list, logical(1)) + dots[data_lists] <- lapply(dots[data_lists], list) + unlist(dots, recursive = FALSE) +} + +#' +#' List Check +#' +#' Checks whether a list is being provided +#' +#' @param x Input object +#' +#' @return Boolean. Indicates whether x is a list +#' +is_data_list <- function (x) +{ + if (is.data.frame(x) || is.null(x)) + return(TRUE) + if (!is.list(x)) + return(FALSE) + if (!is.null(names(x)) && length(x) == 0) + return(TRUE) + if (any(!has_names(x))) + return(FALSE) + is_1d <- vapply(x, is_1d, logical(1)) + if (any(!is_1d)) + return(FALSE) + n <- vapply(x, length, integer(1)) + if (any(n != n[1])) + return(FALSE) + TRUE +} + +#' Check for Names +#' +#' Checks the input object for the existence of names +#' +#' @param x Input object +#' +#' @return Boolean. Indicates whether x has names +has_names <- function (x) +{ + nms <- names(x) + if (is.null(nms)) { + rep(FALSE, length(x)) + } + else { + !is.na(nms) & nms != "" + } +} \ No newline at end of file diff --git a/README.Rmd b/README.Rmd index 007fa54..a0818e9 100644 --- a/README.Rmd +++ b/README.Rmd @@ -17,8 +17,12 @@ knitr::opts_chunk$set( # tidyjson [![CRAN_Status_Badge](http://www.r-pkg.org/badges/version/tidyjson)](https://cran.r-project.org/package=tidyjson) -[![Build Status](https://travis-ci.org/jeremystan/tidyjson.svg?branch=master)](https://travis-ci.org/jeremystan/tidyjson) -[![Coverage Status](https://img.shields.io/codecov/c/github/jeremystan/tidyjson/master.svg)](https://codecov.io/github/jeremystan/tidyjson?branch=master) +[![Build Status](https://travis-ci.org/colearendt/tidyjson.svg?branch=master)](https://travis-ci.org/colearendt/tidyjson) +[![AppVeyor Build Status](https://ci.appveyor.com/api/projects/status/github/colearendt/tidyjson?branch=master&svg=true)](https://ci.appveyor.com/project/colearendt/tidyjson) + +[![Coverage Status](https://codecov.io/github/colearendt/tidyjson/coverage.svg?branch=master)](https://codecov.io/github/colearendt/tidyjson?branch=master) +[![CRAN Activity](http://cranlogs.r-pkg.org/badges/tidyjson)](https://cran.r-project.org/web/packages/tidyjson/index.html) +[![CRAN History](http://cranlogs.r-pkg.org/badges/grand-total/tidyjson)](https://cran.r-project.org/web/packages/tidyjson/index.html) ![tidyjson graphs](https://cloud.githubusercontent.com/assets/2284427/18217882/1b3b2db4-7114-11e6-8ba3-07938f1db9af.png) @@ -36,33 +40,37 @@ install.packages("tidyjson") or the development version from github: ```R -devtools::install_github("jeremystan/tidyjson") +devtools::install_github("colearendt/tidyjson") ``` ## Examples The following example takes a character vector of `r library(tidyjson);length(worldbank)` -documents in the `worldbank` dataset and spreads out all objects into new -columns - -```{r} +documents in the `worldbank` dataset and spreads out all objects. +Every JSON object key gets its own column with types inferred, so long +as the key does not represent an array. When `recursive=TRUE` (the default behavior), +`spread_all` does this recursively for nested objects and creates column names +using the `sep` parameter (i.e. `{"a":{"b":1}}` with `sep='.'` would +generate a single column: `a.b`). + +```{r, message=FALSE} +library(dplyr) library(tidyjson) -suppressMessages(library(dplyr)) worldbank %>% spread_all ``` -However, some objects in `worldbank` are arrays, this example shows how +Some objects in `worldbank` are arrays, which are not handled by `spread_all`. This example shows how to quickly summarize the top level structure of a JSON collection ```{r} worldbank %>% gather_object %>% json_types %>% count(name, type) ``` -In order to capture the data in `majorsector_percent` we can use `enter_object` +In order to capture the data in the `majorsector_percent` array, we can use `enter_object` to enter into that object, `gather_array` to stack the array and `spread_all` -to capture the object names under the array. +to capture the object items under the array. ```{r} worldbank %>% @@ -80,7 +88,9 @@ worldbank %>% objects having concatenated names * `spread_values()` for specifying a subset of object values to spread into -new columns using the `jstring()`, `jnumber()` and `jlogical()` functions +new columns using the `json_chr()`, `json_dbl()` and `json_lgl()` functions. It is +possible to specify multiple parameters to extract data from nested objects +(i.e. `json_chr('a','b')`). ### Object navigation diff --git a/README.md b/README.md index 73eea46..5e04453 100644 --- a/README.md +++ b/README.md @@ -2,11 +2,26 @@ tidyjson ======== -[![CRAN\_Status\_Badge](http://www.r-pkg.org/badges/version/tidyjson)](https://cran.r-project.org/package=tidyjson) [![Build Status](https://travis-ci.org/jeremystan/tidyjson.svg?branch=master)](https://travis-ci.org/jeremystan/tidyjson) [![Coverage Status](https://img.shields.io/codecov/c/github/jeremystan/tidyjson/master.svg)](https://codecov.io/github/jeremystan/tidyjson?branch=master) - -![tidyjson graphs](https://cloud.githubusercontent.com/assets/2284427/18217882/1b3b2db4-7114-11e6-8ba3-07938f1db9af.png) - -tidyjson provides tools for turning complex [json](http://www.json.org/) into [tidy](https://cran.r-project.org/web/packages/tidyr/vignettes/tidy-data.html) data. +[![CRAN\_Status\_Badge](http://www.r-pkg.org/badges/version/tidyjson)](https://cran.r-project.org/package=tidyjson) +[![Build +Status](https://travis-ci.org/colearendt/tidyjson.svg?branch=master)](https://travis-ci.org/colearendt/tidyjson) +[![AppVeyor Build +Status](https://ci.appveyor.com/api/projects/status/github/colearendt/tidyjson?branch=master&svg=true)](https://ci.appveyor.com/project/colearendt/tidyjson) + +[![Coverage +Status](https://codecov.io/github/colearendt/tidyjson/coverage.svg?branch=master)](https://codecov.io/github/colearendt/tidyjson?branch=master) +[![CRAN +Activity](http://cranlogs.r-pkg.org/badges/tidyjson)](https://cran.r-project.org/web/packages/tidyjson/index.html) +[![CRAN +History](http://cranlogs.r-pkg.org/badges/grand-total/tidyjson)](https://cran.r-project.org/web/packages/tidyjson/index.html) + +![tidyjson +graphs](https://cloud.githubusercontent.com/assets/2284427/18217882/1b3b2db4-7114-11e6-8ba3-07938f1db9af.png) + +tidyjson provides tools for turning complex [json](http://www.json.org/) +into +[tidy](https://cran.r-project.org/web/packages/tidyr/vignettes/tidy-data.html) +data. Installation ------------ @@ -20,57 +35,64 @@ install.packages("tidyjson") or the development version from github: ``` r -devtools::install_github("jeremystan/tidyjson") +devtools::install_github("colearendt/tidyjson") ``` Examples -------- -The following example takes a character vector of 500 documents in the `worldbank` dataset and spreads out all objects into new columns +The following example takes a character vector of 500 documents in the +`worldbank` dataset and spreads out all objects. +Every JSON object key gets its own column with types inferred, so long +as the key does not represent an array. When `recursive=TRUE` (the +default behavior), `spread_all` does this recursively for nested objects +and creates column names using the `sep` parameter (i.e. `{"a":{"b":1}}` +with `sep='.'` would generate a single column: `a.b`). ``` r +library(dplyr) library(tidyjson) -suppressMessages(library(dplyr)) worldbank %>% spread_all #> # A tbl_json: 500 x 8 tibble with a "JSON" attribute -#> `attr(., "JSON")` document.id boardapprovaldate -#> -#> 1 {"_id":{"$oid":... 1 2013-11-12T00:00:00Z -#> 2 {"_id":{"$oid":... 2 2013-11-04T00:00:00Z -#> 3 {"_id":{"$oid":... 3 2013-11-01T00:00:00Z -#> 4 {"_id":{"$oid":... 4 2013-10-31T00:00:00Z -#> 5 {"_id":{"$oid":... 5 2013-10-31T00:00:00Z -#> 6 {"_id":{"$oid":... 6 2013-10-31T00:00:00Z -#> 7 {"_id":{"$oid":... 7 2013-10-29T00:00:00Z -#> 8 {"_id":{"$oid":... 8 2013-10-29T00:00:00Z -#> 9 {"_id":{"$oid":... 9 2013-10-29T00:00:00Z -#> 10 {"_id":{"$oid":... 10 2013-10-29T00:00:00Z -#> # ... with 490 more rows, and 6 more variables: closingdate , -#> # countryshortname , project_name , regionname , -#> # totalamt , `_id.$oid` +#> `attr(., "JSON"… document.id boardapprovalda… closingdate +#> +#> 1 "{\"_id\":{\"$o… 1 2013-11-12T00:0… 2018-07-07… +#> 2 "{\"_id\":{\"$o… 2 2013-11-04T00:0… +#> 3 "{\"_id\":{\"$o… 3 2013-11-01T00:0… +#> 4 "{\"_id\":{\"$o… 4 2013-10-31T00:0… +#> 5 "{\"_id\":{\"$o… 5 2013-10-31T00:0… 2019-04-30… +#> 6 "{\"_id\":{\"$o… 6 2013-10-31T00:0… +#> 7 "{\"_id\":{\"$o… 7 2013-10-29T00:0… 2019-06-30… +#> 8 "{\"_id\":{\"$o… 8 2013-10-29T00:0… +#> 9 "{\"_id\":{\"$o… 9 2013-10-29T00:0… 2018-12-31… +#> 10 "{\"_id\":{\"$o… 10 2013-10-29T00:0… 2014-12-31… +#> # ... with 490 more rows, and 5 more variables: countryshortname , +#> # project_name , regionname , totalamt , `_id.$oid` ``` -However, some objects in `worldbank` are arrays, this example shows how to quickly summarize the top level structure of a JSON collection +Some objects in `worldbank` are arrays, which are not handled by +`spread_all`. This example shows how to quickly summarize the top level +structure of a JSON collection ``` r worldbank %>% gather_object %>% json_types %>% count(name, type) -#> Source: local data frame [8 x 3] -#> Groups: name [?] -#> -#> name type n -#> -#> 1 _id object 500 -#> 2 boardapprovaldate string 500 -#> 3 closingdate string 370 -#> 4 countryshortname string 500 -#> 5 majorsector_percent array 500 -#> 6 project_name string 500 -#> 7 regionname string 500 -#> 8 totalamt number 500 +#> # A tibble: 8 x 3 +#> name type n +#> +#> 1 _id object 500 +#> 2 boardapprovaldate string 500 +#> 3 closingdate string 370 +#> 4 countryshortname string 500 +#> 5 majorsector_percent array 500 +#> 6 project_name string 500 +#> 7 regionname string 500 +#> 8 totalamt number 500 ``` -In order to capture the data in `majorsector_percent` we can use `enter_object` to enter into that object, `gather_array` to stack the array and `spread_all` to capture the object names under the array. +In order to capture the data in the `majorsector_percent` array, we can +use `enter_object` to enter into that object, `gather_array` to stack +the array and `spread_all` to capture the object items under the array. ``` r worldbank %>% @@ -79,18 +101,18 @@ worldbank %>% spread_all %>% select(-document.id, -array.index) #> # A tbl_json: 1,405 x 2 tibble with a "JSON" attribute -#> `attr(., "JSON")` Name Percent -#> -#> 1 {"Name":"Educat... Education 46 -#> 2 {"Name":"Educat... Education 26 -#> 3 {"Name":"Public... Public Administration, Law, and Justice 16 -#> 4 {"Name":"Educat... Education 12 -#> 5 {"Name":"Public... Public Administration, Law, and Justice 70 -#> 6 {"Name":"Public... Public Administration, Law, and Justice 30 -#> 7 {"Name":"Transp... Transportation 100 -#> 8 {"Name":"Health... Health and other social services 100 -#> 9 {"Name":"Indust... Industry and trade 50 -#> 10 {"Name":"Indust... Industry and trade 40 +#> `attr(., "JSON")` Name Percent +#> +#> 1 "{\"Name\":\"Educat..." Education 46 +#> 2 "{\"Name\":\"Educat..." Education 26 +#> 3 "{\"Name\":\"Public..." Public Administration, Law, and Justice 16 +#> 4 "{\"Name\":\"Educat..." Education 12 +#> 5 "{\"Name\":\"Public..." Public Administration, Law, and Justice 70 +#> 6 "{\"Name\":\"Public..." Public Administration, Law, and Justice 30 +#> 7 "{\"Name\":\"Transp..." Transportation 100 +#> 8 "{\"Name\":\"Health..." Health and other social services 100 +#> 9 "{\"Name\":\"Indust..." Industry and trade 50 +#> 10 "{\"Name\":\"Indust..." Industry and trade 40 #> # ... with 1,395 more rows ``` @@ -99,47 +121,65 @@ API ### Spreading objects into columns -- `spread_all()` for spreading all object values into new columns, with nested objects having concatenated names +- `spread_all()` for spreading all object values into new columns, + with nested objects having concatenated names -- `spread_values()` for specifying a subset of object values to spread into new columns using the `jstring()`, `jnumber()` and `jlogical()` functions +- `spread_values()` for specifying a subset of object values to spread + into new columns using the `json_chr()`, `json_dbl()` and + `json_lgl()` functions. It is possible to specify multiple + parameters to extract data from nested objects (i.e. + `json_chr('a','b')`). ### Object navigation -- `enter_object()` for entering into an object by name, discarding all other JSON (and rows without the corresponding object name) and allowing further operations on the object value +- `enter_object()` for entering into an object by name, discarding all + other JSON (and rows without the corresponding object name) and + allowing further operations on the object value -- `gather_object()` for stacking all object name-value pairs by name, expanding the rows of the `tbl_json` object accordingly +- `gather_object()` for stacking all object name-value pairs by name, + expanding the rows of the `tbl_json` object accordingly ### Array navigation -- `gather_array()` for stacking all array values by index, expanding the rows of the `tbl_json` object accordingly +- `gather_array()` for stacking all array values by index, expanding + the rows of the `tbl_json` object accordingly ### JSON inspection - `json_types()` for identifying JSON data types -- `json_length()` for computing the length of JSON data (can be larger than `1` for objects and arrays) +- `json_length()` for computing the length of JSON data (can be larger + than `1` for objects and arrays) -- `json_complexity()` for computing the length of the unnested JSON, i.e., how many terminal leaves there are in a complex JSON structure +- `json_complexity()` for computing the length of the unnested JSON, + i.e., how many terminal leaves there are in a complex JSON structure - `is_json` family of functions for testing the type of JSON data ### JSON summarization -- `json_structure()` for creating a single fixed column data.frame that recursively structures arbitrary JSON data +- `json_structure()` for creating a single fixed column data.frame + that recursively structures arbitrary JSON data -- `json_schema()` for representing the schema of complex JSON, unioned across disparate JSON documents, and collapsing arrays to their most complex type representation +- `json_schema()` for representing the schema of complex JSON, unioned + across disparate JSON documents, and collapsing arrays to their most + complex type representation ### Creating tbl\_json objects -- `as.tbl_json()` for converting a string or character vector into a `tbl_json` object, or for converting a `data.frame` with a JSON column using the `json.column` argument +- `as.tbl_json()` for converting a string or character vector into a + `tbl_json` object, or for converting a `data.frame` with a JSON + column using the `json.column` argument -- `tbl_json()` for combining a `data.frame` and associated `list` derived from JSON data into a `tbl_json` object +- `tbl_json()` for combining a `data.frame` and associated `list` + derived from JSON data into a `tbl_json` object - `read_json()` for reading JSON data from a file ### Converting tbl\_json objects -- `as.character.tbl_json` for converting the JSON attribute of a `tbl_json` object back into a JSON character string +- `as.character.tbl_json` for converting the JSON attribute of a + `tbl_json` object back into a JSON character string ### Included JSON data @@ -147,41 +187,53 @@ API - `issues`: issue data for the dplyr repo from github API -- `worldbank`: world bank funded projects from [jsonstudio](http://jsonstudio.com/resources/) +- `worldbank`: world bank funded projects from + [jsonstudio](http://jsonstudio.com/resources/) -- `companies`: startup company data from [jsonstudio](http://jsonstudio.com/resources/) +- `companies`: startup company data from + [jsonstudio](http://jsonstudio.com/resources/) Philosophy ---------- -The goal is to turn complex JSON data, which is often represented as nested lists, into tidy data frames that can be more easily manipulated. +The goal is to turn complex JSON data, which is often represented as +nested lists, into tidy data frames that can be more easily manipulated. -- Work on a single JSON document, or on a collection of related documents +- Work on a single JSON document, or on a collection of related + documents -- Create pipelines with `%>%`, producing code that can be read from left to right +- Create pipelines with `%>%`, producing code that can be read from + left to right -- Guarantee the structure of the data produced, even if the input JSON structure changes (with the exception of `spread_all`) +- Guarantee the structure of the data produced, even if the input JSON + structure changes (with the exception of `spread_all`) - Work with arbitrarily nested arrays or objects -- Handle 'ragged' arrays and / or objects (varying lengths by document) +- Handle ‘ragged’ arrays and / or objects (varying lengths by + document) - Allow for extraction of data in values or object names - Ensure edge cases are handled correctly (especially empty data) -- Integrate seamlessly with `dplyr`, allowing `tbl_json` objects to pipe in and out of `dplyr` verbs where reasonable +- Integrate seamlessly with `dplyr`, allowing `tbl_json` objects to + pipe in and out of `dplyr` verbs where reasonable Related Work ------------ Tidyjson depends upon -- [magrritr](https://github.com/smbache/magrittr) for the `%>%` pipe operator -- [jsonlite](https://github.com/jeroenooms/jsonlite) for converting JSON strings into nested lists +- [magrritr](https://github.com/smbache/magrittr) for the `%>%` pipe + operator +- [jsonlite](https://github.com/jeroenooms/jsonlite) for converting + JSON strings into nested lists - [purrr](https://github.com/hadley/purrr) for list operators - [tidyr](https://github.com/hadley/tidyr) for unnesting and spreading -Further, there are other R packages that can be used to better understand JSON data +Further, there are other R packages that can be used to better +understand JSON data -- [listviewer](https://github.com/timelyportfolio/listviewer) for viewing JSON data interactively +- [listviewer](https://github.com/timelyportfolio/listviewer) for + viewing JSON data interactively diff --git a/appveyor.yml b/appveyor.yml new file mode 100644 index 0000000..e32d316 --- /dev/null +++ b/appveyor.yml @@ -0,0 +1,42 @@ +# DO NOT CHANGE the "init" and "install" sections below + +# Download script file from GitHub +init: + ps: | + $ErrorActionPreference = "Stop" + Invoke-WebRequest http://raw.github.com/krlmlr/r-appveyor/master/scripts/appveyor-tool.ps1 -OutFile "..\appveyor-tool.ps1" + Import-Module '..\appveyor-tool.ps1' + +install: + ps: Bootstrap + +# Adapt as necessary starting from here + +build_script: + - travis-tool.sh install_deps + +test_script: + - travis-tool.sh run_tests + +on_failure: + - 7z a failure.zip *.Rcheck\* + - appveyor PushArtifact failure.zip + +artifacts: + - path: '*.Rcheck\**\*.log' + name: Logs + + - path: '*.Rcheck\**\*.out' + name: Logs + + - path: '*.Rcheck\**\*.fail' + name: Logs + + - path: '*.Rcheck\**\*.Rout' + name: Logs + + - path: '\*_*.tar.gz' + name: Bits + + - path: '\*_*.zip' + name: Bits diff --git a/man/allowed_json_types.Rd b/man/allowed_json_types.Rd index 8182979..c5f4358 100644 --- a/man/allowed_json_types.Rd +++ b/man/allowed_json_types.Rd @@ -14,4 +14,3 @@ Fundamental JSON types from http://json.org/, where I collapse 'true' and 'false' into 'logical' } \keyword{datasets} - diff --git a/man/append_values.Rd b/man/append_values.Rd index 54a9a99..5066f6c 100644 --- a/man/append_values.Rd +++ b/man/append_values.Rd @@ -2,9 +2,9 @@ % Please edit documentation in R/append_values.R \name{append_values} \alias{append_values} -\alias{append_values_logical} -\alias{append_values_number} \alias{append_values_string} +\alias{append_values_number} +\alias{append_values_logical} \title{Appends all JSON values with a specified type as a new column} \usage{ append_values_string(.x, column.name = type, force = TRUE, @@ -68,4 +68,3 @@ recipes \%>\% \code{\link{gather_object}} to gather an object first, \code{\link{spread_all}} to spread values into new columns } - diff --git a/man/append_values_factory.Rd b/man/append_values_factory.Rd index 3d426d1..690c070 100644 --- a/man/append_values_factory.Rd +++ b/man/append_values_factory.Rd @@ -14,4 +14,3 @@ append_values_factory(type, as.value) \description{ Creates the append_values_* functions } - diff --git a/man/append_values_type.Rd b/man/append_values_type.Rd index 3b563d0..8092301 100644 --- a/man/append_values_type.Rd +++ b/man/append_values_type.Rd @@ -14,4 +14,3 @@ append_values_type(json, type) \description{ get list of values from json } - diff --git a/man/as.character.tbl_json.Rd b/man/as.character.tbl_json.Rd index 4898203..1bd7e18 100644 --- a/man/as.character.tbl_json.Rd +++ b/man/as.character.tbl_json.Rd @@ -17,4 +17,3 @@ a character vector of formatted JSON \description{ Convert the JSON in an tbl_json object back to a JSON string } - diff --git a/man/as_tibble.Rd b/man/as_tibble.Rd new file mode 100644 index 0000000..4463222 --- /dev/null +++ b/man/as_tibble.Rd @@ -0,0 +1,16 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/utils.R +\docType{import} +\name{reexports} +\alias{reexports} +\alias{as_data_frame} +\title{Objects exported from other packages} +\keyword{internal} +\description{ +These objects are imported from other packages. Follow the links +below to see their documentation. + +\describe{ + \item{dplyr}{\code{\link[dplyr]{as_data_frame}}} +}} + diff --git a/man/as_tibble.tbl_json.Rd b/man/as_tibble.tbl_json.Rd new file mode 100644 index 0000000..95c0c35 --- /dev/null +++ b/man/as_tibble.tbl_json.Rd @@ -0,0 +1,29 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/tbl_json.R +\name{as_tibble.tbl_json} +\alias{as_tibble.tbl_json} +\alias{as_data_frame.tbl_json} +\title{Convert a tbl_json back to a tbl_df} +\usage{ +\method{as_tibble}{tbl_json}(x, ...) + +\method{as_data_frame}{tbl_json}(x, ...) +} +\arguments{ +\item{x}{a tbl_json object} + +\item{...}{additional parameters} +} +\value{ +a tbl_df object (with no tbl_json component) +} +\description{ +Drops the JSON attribute and the tbl_json class, so that +we are back to a pure tbl_df. Useful for some internals. Also useful +when you are done processing the JSON portion of your data and are +ready to move on to other tools. +} +\details{ +Note that as.tbl calls tbl_df under the covers, which in turn +calls as_data_frame. As a result, this should take care of all cases. +} diff --git a/man/bind_rows.Rd b/man/bind_rows.Rd new file mode 100644 index 0000000..1bcb83d --- /dev/null +++ b/man/bind_rows.Rd @@ -0,0 +1,38 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/tbl_json.R +\name{bind_rows} +\alias{bind_rows} +\title{Bind Rows (tidyjson)} +\usage{ +bind_rows(...) +} +\arguments{ +\item{...}{Values passed on to dplyr::bind_rows} +} +\value{ +If all parameters are `tbl_json` objects, then the JSON attributes +will be stacked and a `tbl_json` will be returned. Otherwise, +`dplyr::bind_rows` is used, a message is displayed, +and a `tbl_df` is returned. +} +\description{ +Since bind_rows is not currently an s3 method, this function +is meant to mask dplyr::bind_rows (although it is called directly). +} +\examples{ + +## Simple example +a <- as.tbl_json('{"a": 1, "b": 2}') +b <- as.tbl_json('{"a": 3, "b": 4}') + +bind_rows(a,b) \%>\% spread_values(a=jnumber(a),b=jnumber(b)) + +## as a list +bind_rows(list(a,b)) \%>\% spread_all() + +} +\seealso{ +[Related dplyr issue](https://github.com/tidyverse/dplyr/issues/2457) + +\code{\link[dplyr]{bind_rows}} +} diff --git a/man/commits.Rd b/man/commits.Rd index 588518a..967d85e 100644 --- a/man/commits.Rd +++ b/man/commits.Rd @@ -36,4 +36,3 @@ commits \%>\% gather_array("commit") \%>\% enter_object(parents) \%>\% gather_array("parent") \%>\% spread_all \%>\% glimpse } - diff --git a/man/companies.Rd b/man/companies.Rd index c1813b6..1c3ef60 100644 --- a/man/companies.Rd +++ b/man/companies.Rd @@ -41,4 +41,3 @@ key_employees \%>\% arrange(desc(n)) \%>\% top_n(10) } - diff --git a/man/determine_types.Rd b/man/determine_types.Rd index 7d34c65..2c45810 100644 --- a/man/determine_types.Rd +++ b/man/determine_types.Rd @@ -15,4 +15,3 @@ a factor with levels json_types \description{ Determines the types of a list of parsed JSON } - diff --git a/man/enter_object.Rd b/man/enter_object.Rd index ab86d22..a67535d 100644 --- a/man/enter_object.Rd +++ b/man/enter_object.Rd @@ -73,6 +73,5 @@ companies \%>\% \seealso{ \code{\link{gather_object}} to find sub-objects that could be entered into, \code{\link{gather_array}} to gather an array in an object - and \code{\link{spread_all}} to spread values in an object. + and \code{\link{spread_all}} or \code{\link{spread_values}} to spread values in an object. } - diff --git a/man/gather_array.Rd b/man/gather_array.Rd index 86087e5..46d203f 100644 --- a/man/gather_array.Rd +++ b/man/gather_array.Rd @@ -77,4 +77,3 @@ commits \%>\% gather_array \%>\% spread_all(recursive = FALSE) \%>\% glimpse \code{\link[tidyr]{gather}} to gather name-value pairs in a data frame } - diff --git a/man/gather_factory.Rd b/man/gather_factory.Rd index a68fb84..b47a538 100644 --- a/man/gather_factory.Rd +++ b/man/gather_factory.Rd @@ -22,4 +22,3 @@ element of the JSON for this to succeed} \description{ Factory to create gather functions } - diff --git a/man/gather_object.Rd b/man/gather_object.Rd index 4529b41..c24ec58 100644 --- a/man/gather_object.Rd +++ b/man/gather_object.Rd @@ -1,8 +1,8 @@ % Generated by roxygen2: do not edit by hand % Please edit documentation in R/gather.R \name{gather_object} -\alias{gather_keys} \alias{gather_object} +\alias{gather_keys} \title{Gather a JSON object into name-value pairs} \usage{ gather_object(.x, column.name = default.column.name) @@ -67,4 +67,3 @@ worldbank \%>\% gather_object \%>\% json_types \%>\% count(name, type) \code{\link[tidyr]{gather}} to gather name-value pairs in a data frame } - diff --git a/man/has_names.Rd b/man/has_names.Rd new file mode 100644 index 0000000..b1df93f --- /dev/null +++ b/man/has_names.Rd @@ -0,0 +1,17 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/utils.R +\name{has_names} +\alias{has_names} +\title{Check for Names} +\usage{ +has_names(x) +} +\arguments{ +\item{x}{Input object} +} +\value{ +Boolean. Indicates whether x has names +} +\description{ +Checks the input object for the existence of names +} diff --git a/man/is_data_list.Rd b/man/is_data_list.Rd new file mode 100644 index 0000000..c08f746 --- /dev/null +++ b/man/is_data_list.Rd @@ -0,0 +1,17 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/utils.R +\name{is_data_list} +\alias{is_data_list} +\title{List Check} +\usage{ +is_data_list(x) +} +\arguments{ +\item{x}{Input object} +} +\value{ +Boolean. Indicates whether x is a list +} +\description{ +Checks whether a list is being provided +} diff --git a/man/is_json.Rd b/man/is_json.Rd index 303fb86..00583fd 100644 --- a/man/is_json.Rd +++ b/man/is_json.Rd @@ -2,13 +2,13 @@ % Please edit documentation in R/is_json.R \name{is_json} \alias{is_json} -\alias{is_json_array} +\alias{is_json_string} +\alias{is_json_number} \alias{is_json_logical} \alias{is_json_null} -\alias{is_json_number} +\alias{is_json_array} \alias{is_json_object} \alias{is_json_scalar} -\alias{is_json_string} \title{Predicates to test for specific JSON types in \code{\link{tbl_json}} objects} \usage{ is_json_string(.x) @@ -62,4 +62,3 @@ companies[1:5] \%>\% gather_object \%>\% filter(is_json_object(.)) \%>\% \code{\link{json_types}} for creating a new column to identify the type of every JSON document } - diff --git a/man/is_json_factory.Rd b/man/is_json_factory.Rd index 3d6d1a9..6c5c968 100644 --- a/man/is_json_factory.Rd +++ b/man/is_json_factory.Rd @@ -15,4 +15,3 @@ a function \description{ Factory to create \code{is_json} functions } - diff --git a/man/issues.Rd b/man/issues.Rd index 7241600..2cf10e8 100644 --- a/man/issues.Rd +++ b/man/issues.Rd @@ -46,4 +46,3 @@ labels \%>\% group_by(name) \%>\% summarize(num.issues = n_distinct(id)) } - diff --git a/man/json_complexity.Rd b/man/json_complexity.Rd index 1adba4a..bf0654b 100644 --- a/man/json_complexity.Rd +++ b/man/json_complexity.Rd @@ -41,4 +41,3 @@ commits \%>\% gather_array \%>\% json_complexity \%$\% table(complexity) \seealso{ \code{\link{json_lengths}} to compute the length of each value } - diff --git a/man/jfactory.Rd b/man/json_factory.Rd similarity index 80% rename from man/jfactory.Rd rename to man/json_factory.Rd index 8df75e9..65e228e 100644 --- a/man/jfactory.Rd +++ b/man/json_factory.Rd @@ -1,10 +1,10 @@ % Generated by roxygen2: do not edit by hand % Please edit documentation in R/spread_values.R -\name{jfactory} -\alias{jfactory} +\name{json_factory} +\alias{json_factory} \title{Factory that creates the j* functions below} \usage{ -jfactory(map.function) +json_factory(map.function) } \arguments{ \item{map.function}{function to map to collapse} @@ -12,4 +12,3 @@ jfactory(map.function) \description{ Factory that creates the j* functions below } - diff --git a/man/jfunctions.Rd b/man/json_functions.Rd similarity index 95% rename from man/jfunctions.Rd rename to man/json_functions.Rd index 5595a9f..d25ede6 100644 --- a/man/jfunctions.Rd +++ b/man/json_functions.Rd @@ -1,10 +1,10 @@ % Generated by roxygen2: do not edit by hand % Please edit documentation in R/spread_values.R -\name{jfunctions} -\alias{jfunctions} -\alias{jlogical} -\alias{jnumber} +\name{json_functions} +\alias{json_functions} \alias{jstring} +\alias{jnumber} +\alias{jlogical} \title{Navigates nested objects to get at names of a specific type, to be used as arguments to \code{\link{spread_values}}} \usage{ @@ -32,4 +32,3 @@ Note that these functions fail if they encounter the incorrect type. \code{\link{spread_values}} for using these functions to spread the values of a JSON object into new columns } - diff --git a/man/json_lengths.Rd b/man/json_lengths.Rd index 5facc65..d624431 100644 --- a/man/json_lengths.Rd +++ b/man/json_lengths.Rd @@ -42,4 +42,3 @@ commits \%>\% gather_array \%>\% json_lengths \%$\% table(length) \code{\link{json_complexity}} to compute the recursive length of each value } - diff --git a/man/json_schema.Rd b/man/json_schema.Rd index 4a43bd4..c2714ec 100644 --- a/man/json_schema.Rd +++ b/man/json_schema.Rd @@ -72,4 +72,3 @@ issues \%>\% gather_array \%>\% slice(1:10) \%>\% \code{\link{json_structure}} to recursively structure all documents into a single data frame } - diff --git a/man/json_structure.Rd b/man/json_structure.Rd index 6913e16..ed5c9b4 100644 --- a/man/json_structure.Rd +++ b/man/json_structure.Rd @@ -73,4 +73,3 @@ companies[1] \%>\% json_structure \%>\% sample_n(5) \code{\link{json_schema}} to create a schema for a JSON document or collection } - diff --git a/man/json_types.Rd b/man/json_types.Rd index 1e32425..8069e37 100644 --- a/man/json_types.Rd +++ b/man/json_types.Rd @@ -35,4 +35,3 @@ c('{"a": 1}', '[1, 2]', '"a"', '1', 'true', 'null') \%>\% json_types library(dplyr) companies[1:10] \%>\% gather_object \%>\% json_types \%>\% count(type) } - diff --git a/man/list_or_dots.Rd b/man/list_or_dots.Rd new file mode 100644 index 0000000..ddbe40a --- /dev/null +++ b/man/list_or_dots.Rd @@ -0,0 +1,18 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/utils.R +\name{list_or_dots} +\alias{list_or_dots} +\title{List or Dots} +\usage{ +list_or_dots(...) +} +\arguments{ +\item{...}{Either a list or the `...` of a function call} +} +\value{ +The input object coerced into a list for easier use +} +\description{ +Handles dots or a list, coercing into a list +so that the output is easy to handle +} diff --git a/man/my_unlist.Rd b/man/my_unlist.Rd index d4cd32f..3d44cff 100644 --- a/man/my_unlist.Rd +++ b/man/my_unlist.Rd @@ -14,4 +14,3 @@ my_unlist(l, recursive = FALSE) \description{ Unlists while preserving NULLs and only unlisting lists with one value } - diff --git a/man/path.Rd b/man/path.Rd index 90236e9..f31ba04 100644 --- a/man/path.Rd +++ b/man/path.Rd @@ -16,4 +16,3 @@ a \code{path} object \description{ Create a JSON path with a minimum of typing } - diff --git a/man/pipe.Rd b/man/pipe.Rd index e0bc900..92e28ff 100644 --- a/man/pipe.Rd +++ b/man/pipe.Rd @@ -1,13 +1,18 @@ % Generated by roxygen2: do not edit by hand % Please edit documentation in R/utils.R +\docType{import} \name{\%>\%} \alias{\%>\%} \title{Pipe operator} \usage{ lhs \%>\% rhs } -\description{ -Pipe operator -} \keyword{internal} +\description{ +These objects are imported from other packages. Follow the links +below to see their documentation. + +\describe{ + \item{magrittr}{\code{\link[magrittr]{\%>\%}}} +}} diff --git a/man/print.tbl_json.Rd b/man/print.tbl_json.Rd index 255b6a4..747a8a7 100644 --- a/man/print.tbl_json.Rd +++ b/man/print.tbl_json.Rd @@ -18,4 +18,3 @@ \description{ Print a tbl_json object } - diff --git a/man/rbind_tbl_json.Rd b/man/rbind_tbl_json.Rd index c0eafc8..765b208 100644 --- a/man/rbind_tbl_json.Rd +++ b/man/rbind_tbl_json.Rd @@ -17,4 +17,3 @@ x and y row-binded together with appropriate JSON attribute \description{ Bind two tbl_json objects together and preserve JSON attribute } - diff --git a/man/read_json.Rd b/man/read_json.Rd index fa922d7..84d14ab 100644 --- a/man/read_json.Rd +++ b/man/read_json.Rd @@ -22,4 +22,3 @@ a \code{\link{tbl_json}} object Reads JSON from an input uri (file, url, ...) and returns a \code{\link{tbl_json}} object } - diff --git a/man/spread_all.Rd b/man/spread_all.Rd index 9531fa3..d7c82eb 100644 --- a/man/spread_all.Rd +++ b/man/spread_all.Rd @@ -64,4 +64,3 @@ json \%>\% spread_all to spread along with their types, \code{\link[tidyr]{spread}} for spreading data frames } - diff --git a/man/spread_values.Rd b/man/spread_values.Rd index f546cb5..ba0be96 100644 --- a/man/spread_values.Rd +++ b/man/spread_values.Rd @@ -51,7 +51,7 @@ json \%>\% ) # Another document, this time with a middle name (and no age) -json2 <- '{"name": {"first": "Ann", "middle": "A", "last": "Smith"}, "age": 23}' +json2 <- '{"name": {"first": "Ann", "middle": "A", "last": "Smith"}}' # spread_values still gives the same column structure c(json, json2) \%>\% @@ -71,4 +71,3 @@ c(json, json2) \%>\% spread_all \code{\link{jstring}}, \code{\link{jnumber}}, \code{\link{jlogical}} for accessing specific names } - diff --git a/man/sub-.tbl_json.Rd b/man/sub-.tbl_json.Rd index 78c0123..4e5ccbd 100644 --- a/man/sub-.tbl_json.Rd +++ b/man/sub-.tbl_json.Rd @@ -4,8 +4,7 @@ \alias{[.tbl_json} \title{Extract subsets of a tbl_json object (not replace)} \usage{ -\method{[}{tbl_json}(.x, i, j, drop = if (missing(i)) TRUE else length(cols) - == 1) +\method{[}{tbl_json}(.x, i, j, drop = FALSE) } \arguments{ \item{.x}{a tbl_json object} @@ -23,4 +22,3 @@ a \code{\link{tbl_json}} object Extends `[.data.frame` to work with tbl_json objects, so that row filtering of the underlying data.frame also filters the associated JSON. } - diff --git a/man/tbl_json.Rd b/man/tbl_json.Rd index 0746756..900c364 100644 --- a/man/tbl_json.Rd +++ b/man/tbl_json.Rd @@ -1,12 +1,12 @@ % Generated by roxygen2: do not edit by hand % Please edit documentation in R/tbl_json.R \name{tbl_json} +\alias{tbl_json} \alias{as.tbl_json} +\alias{as.tbl_json.tbl_json} \alias{as.tbl_json.character} \alias{as.tbl_json.data.frame} -\alias{as.tbl_json.tbl_json} \alias{is.tbl_json} -\alias{tbl_json} \title{Combines structured JSON (as a data.frame) with remaining JSON} \usage{ tbl_json(df, json.list, drop.null.json = FALSE) @@ -41,8 +41,6 @@ is.tbl_json(.x) a \code{\link{tbl_json}} object } \description{ -Combines structured JSON (as a data.frame) with remaining JSON - Constructs a \code{tbl_json} object, for further downstream manipulation by other tidyjson functions. Methods exist to convert JSON stored in character strings without any other associated data, as a separate @@ -94,4 +92,3 @@ farms \%>\% as.tbl_json(json.column = "animals") \%>\% \seealso{ \code{read_json} for reading json from files } - diff --git a/man/tidyjson.Rd b/man/tidyjson.Rd index 74c2d51..2c9d0e4 100644 --- a/man/tidyjson.Rd +++ b/man/tidyjson.Rd @@ -8,4 +8,3 @@ \description{ tidyjson. } - diff --git a/man/worldbank.Rd b/man/worldbank.Rd index fe01312..a4d6fd9 100644 --- a/man/worldbank.Rd +++ b/man/worldbank.Rd @@ -42,4 +42,3 @@ wb_sectors \%>\% arrange(desc(n)) \%>\% # Arrange descending top_n(10) # Take the top 10 } - diff --git a/man/wrap_dplyr_verb.Rd b/man/wrap_dplyr_verb.Rd index 9ad4fa3..9d5e824 100644 --- a/man/wrap_dplyr_verb.Rd +++ b/man/wrap_dplyr_verb.Rd @@ -12,4 +12,3 @@ wrap_dplyr_verb(dplyr.verb) \description{ Wrapper for extending dplyr verbs to tbl_json objects } - diff --git a/packrat/init.R b/packrat/init.R new file mode 100644 index 0000000..a768be5 --- /dev/null +++ b/packrat/init.R @@ -0,0 +1,217 @@ +local({ + + ## Helper function to get the path to the library directory for a + ## given packrat project. + getPackratLibDir <- function(projDir = NULL) { + path <- file.path("packrat", "lib", R.version$platform, getRversion()) + + if (!is.null(projDir)) { + + ## Strip trailing slashes if necessary + projDir <- sub("/+$", "", projDir) + + ## Only prepend path if different from current working dir + if (!identical(normalizePath(projDir), normalizePath(getwd()))) + path <- file.path(projDir, path) + } + + path + } + + ## Ensure that we set the packrat library directory relative to the + ## project directory. Normally, this should be the working directory, + ## but we also use '.rs.getProjectDirectory()' if necessary (e.g. we're + ## rebuilding a project while within a separate directory) + libDir <- if (exists(".rs.getProjectDirectory")) + getPackratLibDir(.rs.getProjectDirectory()) + else + getPackratLibDir() + + ## Unload packrat in case it's loaded -- this ensures packrat _must_ be + ## loaded from the private library. Note that `requireNamespace` will + ## succeed if the package is already loaded, regardless of lib.loc! + if ("packrat" %in% loadedNamespaces()) + try(unloadNamespace("packrat"), silent = TRUE) + + if (suppressWarnings(requireNamespace("packrat", quietly = TRUE, lib.loc = libDir))) { + + # Check 'print.banner.on.startup' -- when NA and RStudio, don't print + print.banner <- packrat::get_opts("print.banner.on.startup") + if (print.banner == "auto" && is.na(Sys.getenv("RSTUDIO", unset = NA))) { + print.banner <- TRUE + } else { + print.banner <- FALSE + } + return(packrat::on(print.banner = print.banner)) + } + + ## Escape hatch to allow RStudio to handle bootstrapping. This + ## enables RStudio to provide print output when automagically + ## restoring a project from a bundle on load. + if (!is.na(Sys.getenv("RSTUDIO", unset = NA)) && + is.na(Sys.getenv("RSTUDIO_PACKRAT_BOOTSTRAP", unset = NA))) { + Sys.setenv("RSTUDIO_PACKRAT_BOOTSTRAP" = "1") + setHook("rstudio.sessionInit", function(...) { + # Ensure that, on sourcing 'packrat/init.R', we are + # within the project root directory + if (exists(".rs.getProjectDirectory")) { + owd <- getwd() + setwd(.rs.getProjectDirectory()) + on.exit(setwd(owd), add = TRUE) + } + source("packrat/init.R") + }) + return(invisible(NULL)) + } + + ## Bootstrapping -- only performed in interactive contexts, + ## or when explicitly asked for on the command line + if (interactive() || "--bootstrap-packrat" %in% commandArgs(TRUE)) { + + message("Packrat is not installed in the local library -- ", + "attempting to bootstrap an installation...") + + ## We need utils for the following to succeed -- there are calls to functions + ## in 'restore' that are contained within utils. utils gets loaded at the + ## end of start-up anyhow, so this should be fine + library("utils", character.only = TRUE) + + ## Install packrat into local project library + packratSrcPath <- list.files(full.names = TRUE, + file.path("packrat", "src", "packrat") + ) + + ## No packrat tarballs available locally -- try some other means of installation + if (!length(packratSrcPath)) { + + message("> No source tarball of packrat available locally") + + ## There are no packrat sources available -- try using a version of + ## packrat installed in the user library to bootstrap + if (requireNamespace("packrat", quietly = TRUE) && packageVersion("packrat") >= "0.2.0.99") { + message("> Using user-library packrat (", + packageVersion("packrat"), + ") to bootstrap this project") + } + + ## Couldn't find a user-local packrat -- try finding and using devtools + ## to install + else if (requireNamespace("devtools", quietly = TRUE)) { + message("> Attempting to use devtools::install_github to install ", + "a temporary version of packrat") + library(stats) ## for setNames + devtools::install_github("rstudio/packrat") + } + + ## Try downloading packrat from CRAN if available + else if ("packrat" %in% rownames(available.packages())) { + message("> Installing packrat from CRAN") + install.packages("packrat") + } + + ## Fail -- couldn't find an appropriate means of installing packrat + else { + stop("Could not automatically bootstrap packrat -- try running ", + "\"'install.packages('devtools'); devtools::install_github('rstudio/packrat')\"", + "and restarting R to bootstrap packrat.") + } + + # Restore the project, unload the temporary packrat, and load the private packrat + packrat::restore(prompt = FALSE, restart = TRUE) + + ## This code path only reached if we didn't restart earlier + unloadNamespace("packrat") + requireNamespace("packrat", lib.loc = libDir, quietly = TRUE) + return(packrat::on()) + + } + + ## Multiple packrat tarballs available locally -- try to choose one + ## TODO: read lock file and infer most appropriate from there; low priority because + ## after bootstrapping packrat a restore should do the right thing + if (length(packratSrcPath) > 1) { + warning("Multiple versions of packrat available in the source directory;", + "using packrat source:\n- ", shQuote(packratSrcPath)) + packratSrcPath <- packratSrcPath[[1]] + } + + + lib <- file.path("packrat", "lib", R.version$platform, getRversion()) + if (!file.exists(lib)) { + dir.create(lib, recursive = TRUE) + } + lib <- normalizePath(lib, winslash = "/") + + message("> Installing packrat into project private library:") + message("- ", shQuote(lib)) + + surround <- function(x, with) { + if (!length(x)) return(character()) + paste0(with, x, with) + } + + ## The following is performed because a regular install.packages call can fail + peq <- function(x, y) paste(x, y, sep = " = ") + installArgs <- c( + peq("pkgs", surround(packratSrcPath, with = "'")), + peq("lib", surround(lib, with = "'")), + peq("repos", "NULL"), + peq("type", surround("source", with = "'")) + ) + installCmd <- paste(sep = "", + "utils::install.packages(", + paste(installArgs, collapse = ", "), + ")") + + fullCmd <- paste( + surround(file.path(R.home("bin"), "R"), with = "\""), + "--vanilla", + "--slave", + "-e", + surround(installCmd, with = "\"") + ) + system(fullCmd) + + ## Tag the installed packrat so we know it's managed by packrat + ## TODO: should this be taking information from the lockfile? this is a bit awkward + ## because we're taking an un-annotated packrat source tarball and simply assuming it's now + ## an 'installed from source' version + + ## -- InstallAgent -- ## + installAgent <- 'InstallAgent: packrat 0.4.8-1' + + ## -- InstallSource -- ## + installSource <- 'InstallSource: source' + + packratDescPath <- file.path(lib, "packrat", "DESCRIPTION") + DESCRIPTION <- readLines(packratDescPath) + DESCRIPTION <- c(DESCRIPTION, installAgent, installSource) + cat(DESCRIPTION, file = packratDescPath, sep = "\n") + + # Otherwise, continue on as normal + message("> Attaching packrat") + library("packrat", character.only = TRUE, lib.loc = lib) + + message("> Restoring library") + restore(restart = FALSE) + + # If the environment allows us to restart, do so with a call to restore + restart <- getOption("restart") + if (!is.null(restart)) { + message("> Packrat bootstrap successfully completed. ", + "Restarting R and entering packrat mode...") + return(restart()) + } + + # Callers (source-erers) can define this hidden variable to make sure we don't enter packrat mode + # Primarily useful for testing + if (!exists(".__DONT_ENTER_PACKRAT_MODE__.") && interactive()) { + message("> Packrat bootstrap successfully completed. Entering packrat mode...") + packrat::on() + } + + Sys.unsetenv("RSTUDIO_PACKRAT_BOOTSTRAP") + + } + +}) diff --git a/packrat/packrat.lock b/packrat/packrat.lock new file mode 100644 index 0000000..36c8a95 --- /dev/null +++ b/packrat/packrat.lock @@ -0,0 +1,551 @@ +PackratFormat: 1.4 +PackratVersion: 0.4.8.1 +RVersion: 3.4.0 +Repos: CRAN=https://mirrors.nics.utk.edu/cran/ + +Package: BH +Source: CRAN +Version: 1.62.0-1 +Hash: 14dfb3e8ffe20996118306ff4de1fab2 + +Package: DBI +Source: CRAN +Version: 0.6-1 +Hash: 4aef5bda70897c1663d5b8bae2f4419a + +Package: MASS +Source: CRAN +Version: 7.3-47 +Hash: cef924b1619219cfc32edbb8a340e652 + +Package: Matrix +Source: CRAN +Version: 1.2-10 +Hash: 7db92f569e4b8d50a6c86ed54cf481d0 +Requires: lattice + +Package: NMF +Source: CRAN +Version: 0.20.6 +Hash: 632aad207ab2e551b33990c9f09ab8af +Requires: RColorBrewer, cluster, colorspace, digest, doParallel, + foreach, ggplot2, gridBase, pkgmaker, registry, reshape2, rngtools, + stringr + +Package: R6 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+ +Package: xml2 +Source: CRAN +Version: 1.1.1 +Hash: 35dbee121bb8d76347677290ba1c6a06 +Requires: BH, Rcpp + +Package: xtable +Source: CRAN +Version: 1.8-2 +Hash: 7293235cfcc14cdff1ce7fd1a0212031 + +Package: yaml +Source: CRAN +Version: 2.1.14 +Hash: c81230c3a7d9ba20607ad6b4331173d1 diff --git a/packrat/packrat.opts b/packrat/packrat.opts new file mode 100644 index 0000000..183af2e --- /dev/null +++ b/packrat/packrat.opts @@ -0,0 +1,15 @@ +auto.snapshot: TRUE +use.cache: FALSE +print.banner.on.startup: auto +vcs.ignore.lib: TRUE +vcs.ignore.src: TRUE +external.packages: +local.repos: +load.external.packages.on.startup: TRUE +ignored.packages: +quiet.package.installation: TRUE +snapshot.recommended.packages: FALSE +snapshot.fields: + Imports + Depends + LinkingTo diff --git a/revdep/README.md b/revdep/README.md new file mode 100644 index 0000000..0484c5b --- /dev/null +++ b/revdep/README.md @@ -0,0 +1,53 @@ +# Setup + +## Platform + +|setting |value | +|:--------|:----------------------------| +|version |R version 3.4.0 (2017-04-21) | +|system |x86_64, linux-gnu | +|ui |RStudio (1.0.143) | +|language |en_US | +|collate |en_US.UTF-8 | +|tz |America/New_York | +|date |2017-05-22 | + +## Packages + +|package |* |version |date |source | +|:------------|:--|:----------|:----------|:------------------------------| +|assertthat | |0.2.0 |2017-04-11 |cran (@0.2.0) | +|covr | |2.2.2 |2017-01-05 |cran (@2.2.2) | +|dplyr | |0.5.0 |2016-06-24 |cran (@0.5.0) | +|forcats | |0.2.0 |2017-01-23 |cran (@0.2.0) | +|ggplot2 | |2.2.1 |2016-12-30 |cran (@2.2.1) | +|igraph | |1.0.1 |2015-06-26 |cran (@1.0.1) | +|jsonlite | |1.4 |2017-04-08 |cran (@1.4) | +|knitr | |1.16 |2017-05-18 |cran (@1.16) | +|listviewer | |1.4.0 |2016-11-03 |cran (@1.4.0) | +|magrittr | |1.5 |2014-11-22 |cran (@1.5) | +|needs | |0.0.3 |2016-03-28 |cran (@0.0.3) | +|purrr | |0.2.2.2 |2017-05-11 |cran (@0.2.2.2) | +|RColorBrewer | |1.1-2 |2014-12-07 |cran (@1.1-2) | +|rmarkdown | |1.5 |2017-04-26 |cran (@1.5) | +|testthat |* |1.0.2 |2016-04-23 |cran (@1.0.2) | +|tibble | |1.3.1 |2017-05-17 |cran (@1.3.1) | +|tidyjson |* |0.2.1.9000 |2017-05-22 |local (colearendt/tidyjson@NA) | +|tidyr | |0.6.3 |2017-05-15 |cran (@0.6.3) | +|viridis | |0.4.0 |2017-03-27 |cran (@0.4.0) | +|wordcloud | |2.5 |2014-06-13 |cran (@2.5) | + +# Check results + +1 packages + +|package |version | errors| warnings| notes| +|:----------------|:-------|------:|--------:|-----:| +|googleAnalyticsR |0.4.0 | 0| 0| 0| + +## googleAnalyticsR (0.4.0) +Maintainer: Mark Edmondson +Bug reports: https://github.com/MarkEdmondson1234/googleAnalyticsR/issues + +0 errors | 0 warnings | 0 notes + diff --git a/revdep/checks.rds b/revdep/checks.rds new file mode 100644 index 0000000..22d2bc3 Binary files /dev/null and b/revdep/checks.rds differ diff --git a/revdep/problems.md b/revdep/problems.md new file mode 100644 index 0000000..f4cc415 --- /dev/null +++ b/revdep/problems.md @@ -0,0 +1,46 @@ +# Setup + +## Platform + +|setting |value | +|:--------|:----------------------------| +|version |R version 3.4.0 (2017-04-21) | +|system |x86_64, linux-gnu | +|ui |RStudio (1.0.143) | +|language |en_US | +|collate |en_US.UTF-8 | +|tz |America/New_York | +|date |2017-05-22 | + +## Packages + +|package |* |version |date |source | +|:------------|:--|:----------|:----------|:------------------------------| +|assertthat | |0.2.0 |2017-04-11 |cran (@0.2.0) | +|covr | |2.2.2 |2017-01-05 |cran (@2.2.2) | +|dplyr | |0.5.0 |2016-06-24 |cran (@0.5.0) | +|forcats | |0.2.0 |2017-01-23 |cran (@0.2.0) | +|ggplot2 | |2.2.1 |2016-12-30 |cran (@2.2.1) | +|igraph | |1.0.1 |2015-06-26 |cran (@1.0.1) | +|jsonlite | |1.4 |2017-04-08 |cran (@1.4) | +|knitr | |1.16 |2017-05-18 |cran (@1.16) | +|listviewer | |1.4.0 |2016-11-03 |cran (@1.4.0) | +|magrittr | |1.5 |2014-11-22 |cran (@1.5) | +|needs | |0.0.3 |2016-03-28 |cran (@0.0.3) | +|purrr | |0.2.2.2 |2017-05-11 |cran (@0.2.2.2) | +|RColorBrewer | |1.1-2 |2014-12-07 |cran (@1.1-2) | +|rmarkdown | |1.5 |2017-04-26 |cran (@1.5) | +|testthat |* |1.0.2 |2016-04-23 |cran (@1.0.2) | +|tibble | |1.3.1 |2017-05-17 |cran (@1.3.1) | +|tidyjson |* |0.2.1.9000 |2017-05-22 |local (colearendt/tidyjson@NA) | +|tidyr | |0.6.3 |2017-05-15 |cran (@0.6.3) | +|viridis | |0.4.0 |2017-03-27 |cran (@0.4.0) | +|wordcloud | |2.5 |2014-06-13 |cran (@2.5) | + +# Check results + +0 packages with problems + + + + diff --git a/revdep/timing.md b/revdep/timing.md new file mode 100644 index 0000000..58bc7cb --- /dev/null +++ b/revdep/timing.md @@ -0,0 +1,7 @@ +# Check times + +|package |version | check_time| +|:----------------|:-------|----------:| +|googleAnalyticsR |0.4.0 | 66.4| + + diff --git a/tests/testthat/test-append_values.R b/tests/testthat/test-append_values.R index a78dada..1591213 100644 --- a/tests/testthat/test-append_values.R +++ b/tests/testthat/test-append_values.R @@ -222,6 +222,8 @@ test_that("recursive works as expected", { } ) + + context("my_unlist") test_that("my_unlist safely handles edge cases", { diff --git a/tests/testthat/test-gather_object.R b/tests/testthat/test-gather_object.R index 331a6dc..529d373 100644 --- a/tests/testthat/test-gather_object.R +++ b/tests/testthat/test-gather_object.R @@ -115,6 +115,21 @@ test_that("preserves a NULL column", { } ) + +test_that('gather_object handles non-object columns gracefully',{ + skip('does not presently work') + + j <- "{\"a\":[1],\"b\":[2],\"c\":{\"a\":[1,2,3,4,5],\"b\":[2],\"c\":{\"a\":[1],\"d\":[3],\"e\":[]}},\"d\":{\"y\":[3],\"z\":[2]}}" + + t1 <- j %>% gather_object() %>% json_types() + + t1 %>% filter(name=='c') %>% gather_object('next') %>% gather_object() + + json <- '{"a":{"b":1,"c":2},"d":3}' + + json %>% gather_object() %>% gather_object() +}) + context("gather_keys") test_that("gather_keys throws a warning", { diff --git a/tests/testthat/test-json_structure.R b/tests/testthat/test-json_structure.R index 6d2cc39..c47f18b 100644 --- a/tests/testthat/test-json_structure.R +++ b/tests/testthat/test-json_structure.R @@ -5,7 +5,7 @@ test_that("simple string works", { expect_identical( '"a"' %>% json_structure, tbl_json( - data_frame( + dplyr::data_frame( document.id = 1L, parent.id = NA_character_, level = 0L, @@ -27,7 +27,7 @@ test_that("simple object works", { expect_identical( '{"name": "value"}' %>% json_structure, tbl_json( - data_frame( + dplyr::data_frame( document.id = c(1L, 1L), parent.id = c(NA_character_, "1"), level = c(0L, 1L), @@ -49,7 +49,7 @@ test_that("simple array works", { expect_identical( '[1, 2]' %>% json_structure, tbl_json( - data_frame( + dplyr::data_frame( document.id = c(1L, 1L, 1L), parent.id = c(NA_character_, "1", "1"), level = c(0L, 1L, 1L), @@ -71,7 +71,7 @@ test_that("nested object works", { expect_identical( '{"k1": {"k2": "value"}}' %>% json_structure, tbl_json( - data_frame( + dplyr::data_frame( document.id = c(1L, 1L, 1L), parent.id = c(NA_character_, "1", "1.1"), level = c(0L, 1L, 2L), @@ -95,7 +95,7 @@ test_that("works with empty values appropriately", { expect_identical( 'null' %>% json_structure, tbl_json( - data_frame( + dplyr::data_frame( document.id = 1L, parent.id = NA_character_, level = 0L, @@ -117,7 +117,7 @@ test_that("works with tbl_json already", { expect_identical( c('"a"', '"b"') %>% as.tbl_json %>% json_structure, tbl_json( - data_frame( + dplyr::data_frame( document.id = c(1L, 2L), parent.id = rep(NA_character_, 2), level = rep(0L, 2), @@ -154,3 +154,29 @@ test_that("works with empty JSON", { expect_identical('null' %>% json_structure %>% nrow, 1L) }) + + +test_that("imputes document.id when not present", { + j1 <- dplyr::data_frame(id=1, json='"a"') %>% + as.tbl_json(json.column = 'json') %>% json_structure() + j2 <- dplyr::data_frame(id=1, json='["a"]') %>% + as.tbl_json(json.column = 'json') %>% json_structure() + j3 <- dplyr::data_frame(id=1, json='{"a":1}') %>% + as.tbl_json(json.column = 'json') %>% json_structure() + + expect_identical(names(j1), names(j2)) + expect_identical(names(j1), names(j3)) + expect_identical(nrow(j2),nrow(j3)) + expect_identical(as.character(j2$type), c('array','string')) + expect_identical(as.character(j3$type), c('object','number')) +}) + +test_that("imputed document.id works", { + j <- dplyr::data_frame(id=1, json='[{"a":1},{"a":2}]') %>% + as.tbl_json(json.column='json') %>% gather_array() %>% + json_structure() + + expect_identical(j$document.id, c(1L,2L,1L,2L)) + expect_identical(as.character(j$type),c('object','object','number','number')) + expect_identical(j$child.id,c('1','1','1.1','1.2')) +}) diff --git a/tests/testthat/test-path.R b/tests/testthat/test-path.R index c54ab5d..ba65fa1 100644 --- a/tests/testthat/test-path.R +++ b/tests/testthat/test-path.R @@ -32,3 +32,14 @@ test_that("throws an error on length > 1 input", { expect_error(path(list("a", "b"))) }) + + +test_that("works with a vector input", { + skip('Vector input not yet supported in path') + + v <- c('a','b','c') + + expect_identical(path(v) + , structure(c('a','b','c'),class='path') + ) +}) \ No newline at end of file diff --git a/tests/testthat/test-spread_all.R b/tests/testthat/test-spread_all.R index d59550e..f9df27a 100644 --- a/tests/testthat/test-spread_all.R +++ b/tests/testthat/test-spread_all.R @@ -5,7 +5,7 @@ test_that("works for simple example", { expect_identical( '{"a": 1, "b": "x", "c": true}' %>% spread_all, tbl_json( - data_frame( + dplyr::data_frame( document.id = 1L, a = 1, b = "x", @@ -22,7 +22,7 @@ test_that("spreads a null column", { expect_identical( '{"a": null}' %>% spread_all, tbl_json( - data_frame( + dplyr::data_frame( document.id = 1L, a = NA ), @@ -43,7 +43,7 @@ test_that("handles a more complex document", { expect_identical( json %>% spread_all, tbl_json( - data_frame( + dplyr::data_frame( document.id = 1L:3L, a = c("x", NA_character_, NA_character_), b = c(1, NA_integer_, NA_integer_), @@ -51,7 +51,7 @@ test_that("handles a more complex document", { d = rep(NA, 3), e = rep(NA, 3) ), - json %>% map(fromJSON, simplifyVector = FALSE) + json %>% purrr::map(jsonlite::fromJSON, simplifyVector = FALSE) ) ) @@ -102,14 +102,14 @@ test_that("recursive names work", { expect_identical( json %>% spread_all, tbl_json( - data_frame( + dplyr::data_frame( document.id = 1L, k1 = 1, k6 = 4, k2.k3 = 2, k2.k4.k5 = 3 ), - json %>% map(fromJSON, simplifyVector = FALSE) + json %>% purrr::map(jsonlite::fromJSON, simplifyVector = FALSE) ) ) @@ -149,8 +149,8 @@ test_that("works with multiple duplicated columns", { expect_identical( suppressWarnings(json %>% spread_all), tbl_json( - data_frame(document.id = 1L, key = "a", key.2 = "b", key.3 = "c"), - list(fromJSON(json, simplifyVector = FALSE)) + dplyr::data_frame(document.id = 1L, key = "a", key.2 = "b", key.3 = "c"), + list(jsonlite::fromJSON(json, simplifyVector = FALSE)) ) ) expect_warning(json %>% spread_all) @@ -159,16 +159,63 @@ test_that("works with multiple duplicated columns", { test_that("works when column names are duplicated from data frame", { - df <- data_frame(key = 1L, json = '{"key": "a", "key": "b"}') %>% + df <- dplyr::data_frame(key = 1L, json = '{"key": "a", "key": "b"}') %>% as.tbl_json(json.column = "json") expect_identical( suppressWarnings(df %>% spread_all), tbl_json( - data_frame(key = 1L, key.2 = "a", key.3 = "b"), + dplyr::data_frame(key = 1L, key.2 = "a", key.3 = "b"), attr(df, "JSON") ) ) expect_warning(df %>% spread_all) }) + +test_that("works with recursive=FALSE when objects are present", { + json <- '{"id":1, "name": "Charles", "obj":{"a":2, "b": "test"}}' + + j <- json %>% spread_all(recursive=FALSE) + + expect_identical(names(j),c('document.id','id','name')) + + i <- issues %>% gather_array() %>% spread_all(recursive=FALSE) + + expect_equal(nrow(i),30) + expect_equal(ncol(i), 19) +}) + +test_that("attr(.,JSON) remains intact", { + json <- '{"id": 1, "name": "Charles", + "hobby": ["a","b","c","d"], + "obj": {"a":2, "b": "test"}}' + + j <- json %>% spread_all(recursive=FALSE) %>% + spread_values(a=jnumber(obj,a), b=jstring(obj,b)) %>% + enter_object('hobby') %>% gather_array('hobbyid') %>% + append_values_string('hobby') + + expect_equal(j$hobby,c('a','b','c','d')) + expect_equal(nrow(j),4) + expect_equal(names(j),c('document.id','id','name','a','b','hobbyid','hobby')) +}) + +test_that("multiple iterations of deduped names work", { + json <- '{"a.b": 1, "a": {"b.2": 2, "b":3}}' + + expect_warning(json %>% spread_all(), 'results in duplicate column names') + + expect_named(suppressWarnings(json %>% spread_all), c('document.id','a.b','a.b.2','a.b.2.2')) +}) + +test_that('Handles nulls in an array column',{ + skip('Not handled yet') + json <- c('{"a":null}','{"a":[1,2,3]}') + + ## Not sure how best to handle this... if we should get a column a out or not + expect_equal( + (json %>% as.tbl_json() %>% spread_all())$document.id + , c(1,2) + ) +}) \ No newline at end of file diff --git a/tests/testthat/test-spread_values.R b/tests/testthat/test-spread_values.R index 6c511ce..16fbf7b 100644 --- a/tests/testthat/test-spread_values.R +++ b/tests/testthat/test-spread_values.R @@ -86,7 +86,7 @@ test_that("handles missing input properly", { context("spread_values") -test_that("exctract various values", { +test_that("extract various values", { json <- '{"name": "bob", "age": 32, "customer": true}' expected_value <- tbl_json( @@ -172,6 +172,17 @@ test_that("correctly handles []", { } ) +test_that('correctly handles over-specified path', { + json <- '{ "a" : 1 , "b" : "text", "c" : true }' + + expect_equal(json %>% spread_values(a = jnumber("a", "b")) %>% .$a, as.numeric(NA)) + + expect_equal(json %>% spread_values(b = jstring('b','c')) %>% .$b, as.character(NA)) + + expect_equal(json %>% spread_values(c = jlogical('c','d')) %>% .$c, as.logical(NA)) +}) + + context("recursive option") test_that("recursive works for simple input", { @@ -291,4 +302,4 @@ test_that("works with x, json as input", { expect_identical('{"json": 1}' %>% spread_values(json = jstring("json")), '{"json": 1}' %>% spread_values(y = jstring("json")) %>% rename(json = y)) -}) +}) \ No newline at end of file diff --git a/tests/testthat/test-tbl_json.R b/tests/testthat/test-tbl_json.R index 5055ee6..f0bd920 100644 --- a/tests/testthat/test-tbl_json.R +++ b/tests/testthat/test-tbl_json.R @@ -26,7 +26,7 @@ test_that("correctly parses length(json) > 1", { ) }) -test_that("currectly parses character(0)", { +test_that("correctly parses character(0)", { expect_identical( as.tbl_json(character(0)), tbl_json( @@ -51,7 +51,7 @@ test_that("correctly parses empty objects", { }) -test_that("currectly structures an array", { +test_that("correctly structures an array", { expect_identical( as.tbl_json('[{"name": "bob"}, {"name": "susan"}]'), tbl_json( @@ -103,10 +103,83 @@ test_that("works for worldbank data", { }) +test_that("throws informative warning message when attr(.,'JSON') is missing", { + j <- '{"a": 1, "b": "test"}' %>% as.tbl_json() + attr(j,'JSON') <- NULL + + expect_warning(j %>% as.character(),'attr.*JSON.*remove.*tbl_json') + expect_identical(suppressWarnings(j %>% as.character()),character()) +}) + + +context("as.tbl_json.tbl_json") + +test_that('functions as the identity on a simple pipeline', { + x <- commits %>% gather_array() %>% enter_object('commit') %>% spread_all() + + expect_identical( + x, as.tbl_json(x) + ) + + y <- commits %>% gather_array() %>% gather_object() + + expect_identical( + y, as.tbl_json(y) + ) +}) + +test_that('functions as the identity on a more advanced pipeline', { + x <- commits %>% gather_array() %>% spread_values( + sha=jstring('sha') + , name=jstring('commit','author','name') + , msg=jstring('commit','message') + , comment_count=jnumber('commit','comment_count') + , committer.name=jstring('commit','committer','name') + , committer.date=jstring('commit','committer','date') + , tree.sha=jstring('committ','tree','sha') + , tree.url=jstring('committ','tree','url') + , url=jstring('url') + ) + + expect_identical( + x, as.tbl_json(x) + ) +}) + context("print.tbl_json") -test_that("print.tbl_json works for a simple case", { +test_that("jsonlite::toJSON works as anticipated", { + expect_identical(jsonlite::toJSON(attr(as.tbl_json('"a"'),'JSON') + , null='null' + , auto_unbox = TRUE) %>% as.character + , "[\"a\"]") +}) +test_that("purrr::map_chr works as expected", { + a <- attr(as.tbl_json('"a"','JSON'),'JSON') %>% purrr::map_chr(jsonlite::toJSON, + null = "null", + auto_unbox = TRUE) + + expect_identical(a,'\"a\"') +}) + +test_that('print.tbl_df works as expected', { + + skip('tests failing due to upstream print.tbl_df') + z <- dplyr::data_frame(col='"a"') + + expect_identical(capture.output(print(z)) + , c( + "# A tibble: 1 x 1" + , " col" + , " " + , "1 \"a\"" + )) +}) + +test_that("print.tbl_json works for a simple case", { + skip('tests failing due to upstream print.tbl_df') + expect_identical( capture.output(print(as.tbl_json('"a"'))), c('# A tbl_json: 1 x 1 tibble with a \"JSON\" attribute', @@ -114,11 +187,11 @@ test_that("print.tbl_json works for a simple case", { ' ', '1 "a" 1') ) - }) test_that("print.tbl_json json.width works correctly", { - + skip('tests failing due to upstream print.tbl_df') + expect_identical( capture.output(print(as.tbl_json('"12345"'), json.width = 4)), c('# A tbl_json: 1 x 1 tibble with a \"JSON\" attribute', @@ -130,7 +203,8 @@ test_that("print.tbl_json json.width works correctly", { }) test_that("print.tbl_json json.n works correctly", { - + skip('tests failing due to upstream print.tbl_df') + expect_identical( capture.output(print(as.tbl_json(c('"a"', '"b"')), json.n = 1)), c('# A tbl_json: 2 x 1 tibble with a \"JSON\" attribute', @@ -142,6 +216,22 @@ test_that("print.tbl_json json.n works correctly", { }) +test_that('does not throw an error', { + printregex <- 'tbl_json.*JSON.*attribute.*document\\.id' + json <- '{"a":1, "b": "test", "c": [1,2,3]}' + + expect_output(json %>% as.tbl_json() %>% print, printregex) + + j <- json %>% spread_all() %>% enter_object('c') %>% + gather_array('c_id') %>% append_values_number() + + expect_output(j %>% print, printregex) + + attr(j,'JSON') <- NULL + + expect_output(suppressWarnings(j %>% print), printregex) +}) + context("tbl_json: as.tbl_json.data.frame") test_that("works for a data.frame and data_frame created objects", { @@ -156,7 +246,7 @@ test_that("works for a data.frame and data_frame created objects", { as.tbl_json(df$json) ) # data_frame - df <- data_frame( + df <- dplyr::data_frame( document.id = 1:2, json = c('{"name": "bob"}', '{"name": "susan"}')) expect_identical( @@ -169,7 +259,7 @@ test_that("works for a data.frame and data_frame created objects", { test_that("works in a pipeline", { - df <- data_frame( + df <- dplyr::data_frame( age = c(32, 45), json = c('{"name": "bob"}', '{"name": "susan"}') ) @@ -177,7 +267,7 @@ test_that("works in a pipeline", { expect_identical( df %>% as.tbl_json(json.column = "json") %>% spread_values(name = jstring("name")) %>% - filter(age == 32) %>% + dplyr::filter(age == 32) %>% `[[`("name"), "bob" ) @@ -243,14 +333,51 @@ test_that("[ column filtering doesn't change the JSON", { } ) -context("tbl_json: dplyr verbs") + +test_that('handles "drop" like a tbl_df', { + mydata <- as.tbl_json('[{"name": "Frodo", "occupation": "Ring Bearer"} + ,{"name": "Aragorn", "occupation": "Ranger"}]') %>% + gather_array() %>% + spread_values(name=jstring('name'), occupation=jstring('occupation')) + + expect_is(mydata[,],'tbl_json') + expect_is(mydata[,'name'],'tbl_json') + #TODO: Figure out how we want to proceed + #expect_is(suppressWarnings(mydata[,'occupation',drop=TRUE]),'tbl_json') + #expect_warning(is.tbl_json(mydata[,'name',drop=TRUE]),'drop ignored') +}) + +context('as_tibble') + +test_that('as_tibble drops the JSON attribute and tbl_json class', { + + jtidy <- issues %>% gather_array() %>% spread_all() + + expect_identical(attr(dplyr::as_tibble(jtidy),'JSON'),NULL) + expect_false('tbl_json' %in% class(dplyr::as_tibble(jtidy))) +}) + +test_that('as_data_frame functions like as_tibble', { + + jtidy <- issues %>% gather_array() %>% spread_values( + url=jstring('url') + , body=jstring('body') + , user.id=jnumber('user.id') + , user.login=jstring('user.login') + ) + + expect_identical(attr(dplyr::as_data_frame(jtidy),'JSON'),NULL) + expect_false('tbl_json' %in% class(dplyr::as_data_frame(jtidy))) +}) + +context("tbl_json: dplyr NSE verbs") test_that("dplyr::filter works with a simple example", { x <- as.tbl_json(c('{"name": "bob"}', '{"name": "susan"}')) expect_identical( - filter(x, document.id == 1), + dplyr::filter(x, document.id == 1), tbl_json( data.frame(document.id = 1L), list(list(name = "bob")) @@ -268,7 +395,7 @@ test_that("dplyr::filter works in a more complex pipeline", { ) susan.children <- json %>% as.tbl_json %>% spread_values(name = jstring("name")) %>% - filter(name == "susan") %>% + dplyr::filter(name == "susan") %>% enter_object("children") %>% gather_array %>% spread_values(child = jstring("name")) @@ -278,12 +405,13 @@ test_that("dplyr::filter works in a more complex pipeline", { } ) + test_that("dplyr::arrange works with a simple example", { x <- as.tbl_json(c('{"name": "bob"}', '{"name": "susan"}')) expect_identical( - x %>% arrange(desc(document.id)), + x %>% dplyr::arrange(desc(document.id)), tbl_json( data.frame(document.id = c(2L, 1L)), list(list(name = "susan"), list(name = "bob")) @@ -300,9 +428,9 @@ test_that("dplyr::mutate works with a simple example", { expect_identical( x %>% spread_values(name = jstring("name")) %>% - mutate(fullname = paste(name, "green")), + dplyr::mutate(fullname = paste(name, "green")), tbl_json( - data_frame( + dplyr::data_frame( document.id = c(1L, 2L), name = c("bob", "susan"), fullname = c("bob green", "susan green")), @@ -321,7 +449,7 @@ test_that("dplyr::mutate works in a more complex pipeline", { children <- json %>% as.tbl_json %>% spread_values(name = jstring("name")) %>% - mutate(parent.rank = rank(name)) %>% + dplyr::mutate(parent.rank = rank(name)) %>% enter_object("children") %>% gather_array %>% spread_values(child = jstring("name")) @@ -334,7 +462,7 @@ test_that("dplyr::mutate works in a more complex pipeline", { test_that("dplyr::slice works", { - new <- '[1, 2, 3]' %>% gather_array %>% slice(1:2) + new <- '[1, 2, 3]' %>% gather_array %>% dplyr::slice(1:2) expect_is(new, "tbl_json") expect_identical(nrow(new), 2L) @@ -342,9 +470,20 @@ test_that("dplyr::slice works", { }) +test_that('dplyr::select works', { + json <- '[{"id":1, "object":"first"}, {"id":2, "object":"second"}]' + + f <- json %>% as.tbl_json %>% gather_array %>% spread_all %>% + dplyr::select(ID=id, object) + + expect_equal(names(f), c('ID','object')) + expect_equal(nrow(f),2) + expect_is(f,'tbl_json') +}) + test_that("dplyr::rename works", { - new <- '[1, 2, 3]' %>% gather_array %>% rename(blah = document.id) + new <- '[1, 2, 3]' %>% gather_array %>% dplyr::rename(blah = document.id) expect_is(new, "tbl_json") expect_identical(names(new), c("blah", "array.index")) @@ -353,7 +492,7 @@ test_that("dplyr::rename works", { test_that("dplyr::transmute works", { - new <- '[1, 2, 3]' %>% gather_array %>% transmute(blah = document.id) + new <- '[1, 2, 3]' %>% gather_array %>% dplyr::transmute(blah = document.id) expect_is(new, "tbl_json") expect_identical(names(new), "blah") @@ -362,11 +501,130 @@ test_that("dplyr::transmute works", { test_that("dplyr::sample_n works", { - new <- '[1, 2, 3, 4, 5, 6, 7, 8, 9, 10]' %>% gather_array %>% sample_n(2) + new <- '[1, 2, 3, 4, 5, 6, 7, 8, 9, 10]' %>% gather_array %>% dplyr::sample_n(2) expect_is(new, "tbl_json") - expect_identical(new$array.index, attr(new, "JSON") %>% flatten_int) + expect_identical(new$array.index, attr(new, "JSON") %>% purrr::flatten_int()) + +}) +test_that("bind_rows works with tbl_json", { + + # Define a simple JSON array + people <- ' + [ + { + "name": "bob", + "age": 32 + }, + { + "name": "susan", + "age": 54 + } + ]' + + # Structure the data + people_df <- people %>% + gather_array %>% + spread_values( + name = jstring("name"), + age = jnumber("age")) + + z <- people_df %>% bind_rows(people_df) + + + expect_is(attr(z,'JSON'),'list') + expect_is(z, 'tbl_json') + expect_equal(nrow(z), nrow(people_df) * 2) + expect_equal(length(attr(z,'JSON')), nrow(people_df) * 2) }) +test_that("bind_rows falls back to normal behavior if not tbl_json", { + a <- dplyr::data_frame(a=c(1,2), b=c('one','two')) + c <- dplyr::data_frame(a=c(3,4), b=c('three','four')) + + out <- bind_rows(a,c) + expect_equal(nrow(out), nrow(a) + nrow(c)) + expect_equal(names(out), c('a','b')) + expect_is(out,'tbl_df') +}) +context('tbl_json: dplyr SE verbs') + +test_that('dplyr::filter_ works', { + json <- '[{"a": "fun", "b": 2},{"a": "blam", "b": 3}]' + v <- c('a == "fun"') + + f <- json %>% gather_array %>% spread_all %>% + dplyr::filter_(.dots=v) + + expect_identical(f$a,c('fun')) + expect_identical(f$b,c(2)) + expect_identical(nrow(f),1L) + expect_is(f,'tbl_json') +}) + +test_that('dplyr::mutate_ works', { + json <- '{ "one": "zip", "two": "zap", "three": "zzz" }' + v <- c(four='paste(one,two,sep="/")', five='three') + + f <- json %>% spread_all %>% dplyr::mutate_(.dots=v) + + expect_identical(f$four,'zip/zap') + expect_identical(f$five, 'zzz') + expect_is(f,'tbl_json') +}) + +test_that('dplyr::rename_ works', { + json <- '{ "first": "bill", "last":"bo" }' + v <- c(firstName='first', lastName='last') + + f <- json %>% spread_all %>% dplyr::rename_(.dots=v) + + expect_identical(names(f),c('document.id','firstName','lastName')) + expect_is(f,'tbl_json') +}) + +test_that('dplyr::select_ works', { + json <- '{ "hill": "top", "valley": "floor", "mountain": "top" }' + v <- c(Hill='hill','valley') + + f <- json %>% spread_all %>% dplyr::select_(.dots=v) + + expect_identical(names(f),c('Hill','valley')) + expect_is(f,'tbl_json') +}) + +test_that('dplyr::arrange_ works', { + json <- '[{ "somewhere": "over" },{"somewhere": "fun"}, {"somewhere": "else"}]' + v <- c('somewhere') + + f <- json %>% gather_array %>% spread_all %>% dplyr::arrange_(.dots=v) + + expect_identical(f$somewhere,c('else','fun','over')) + expect_identical(f$array.index, c(3L,2L,1L)) + expect_is(f,'tbl_json') +}) + +test_that('dplyr::transmute_ works', { + json <- '{ "first": "frodo", "last": "baggins"}' + v <- c(firstName='first') + + f <- json %>% spread_all %>% dplyr::transmute_(.dots=v) + + expect_identical(names(f), 'firstName') + expect_is(f,'tbl_json') +}) + +test_that('dplyr::slice_ works', { + json <- '[{"id":7, "obj":"a"} + ,{"id":8, "obj":"a"} + ,{"id":9, "obj":"b"} + ,{"id":10, "obj":"c"}]' + v <- '1' + + f <- json %>% gather_array %>% spread_all %>% slice_(.dots=v) + expect_identical(nrow(f),1L) + expect_identical(f$id,7) + expect_is(f,'tbl_json') +}) diff --git a/vignettes/multiple-apis.Rmd b/vignettes/multiple-apis.Rmd new file mode 100644 index 0000000..c70990e --- /dev/null +++ b/vignettes/multiple-apis.Rmd @@ -0,0 +1,196 @@ +--- +title: "Using Multiple APIs" +date: "`r Sys.Date()`" +output: + rmarkdown::html_vignette: + df_output: paged + fig_width: 5 +vignette: > + %\VignetteIndexEntry{Using Multiple APIs} + %\VignetteEngine{knitr::rmarkdown} + \usepackage[utf8]{inputenc} +--- + +```{r setup, include=FALSE} +knitr::opts_chunk$set(collapse = T, comment = "#>") +options(tibble.print_min = 4L, tibble.print_max = 10L) +``` + +Let's take a look at a few HTTP APIs that transmit data in JSON format, and then get that data into tidy data_frames with tidyjson. + +```{r load, echo=TRUE, results='hide', message=FALSE} +library(dplyr) +library(tidyr) +library(jsonlite) +library(tidyjson) +library(ggplot2) +library(lubridate) +``` + +# Github + +The tidyverse is used heavily for data cleansing, so let's explore some tidyverse repository data through Github's APIs. We are going to grab the data directly and then explore the structure of the JSON with `json_schema`. + +```{r gitapi, echo=TRUE} +baseurl <- 'https://api.github.com/repos/tidyverse/dplyr/issues' +dplyr_issues <- as.tbl_json(baseurl) + +dplyr_issues %>% json_schema %>% prettify +``` + +After exploring the structure of the data, we decide we want to look at a high level overview of the isssues we have. Note that we can grab nested object detail by declaring a more complex path like `jstring('assignee','login')`. This avoids the tendency to use `enter_object()` where it is not necessary. + +```{r gitapi_highlevel, echo=TRUE} + +highlevel <- dplyr_issues %>% gather_array('index') %>% + spread_values(id=jnumber('id') + , assignee=jstring('assignee','login') + , comments=jnumber('comments') + , title=jstring('title') + , state=jstring('state') + , number=jnumber('number') + ) + +print(highlevel) + +``` + +And perhaps we want to look at a few different summaries. We notice that there are only 30 issues here, but anyone familiar with `dplyr` will know that the repo is much more popular than that. Github's API is paginated, so we only got the first 30 issues back from the API. + +```{r gitapi_summarize, echo=TRUE} + +highlevel %>% group_by(assignee) %>% summarize(nissues=n()) + +highlevel %>% group_by(comments) %>% summarize(nissues=n(), issues=paste(number,collapse=',')) %>% + ungroup() %>% arrange(desc(comments)) + +highlevel %>% group_by(state) %>% summarize(nissues=n()) + +``` + +Let's aggregate a few more api calls. Documentation can be found at the [github API docs](https://developer.github.com/guides/traversing-with-pagination/) and in particular [here](https://developer.github.com/v3/issues/#list-issues). + +```{r gitapi_many, echo=TRUE} +manyissues <- lapply(c(1:7), function(x){as.tbl_json(paste0(baseurl,'?state=all&per_page=50&page=',x))}) + +## Collapse into one tbl_json +manyissues <- tidyjson::bind_rows(manyissues) + +## Summarize status & users that create issues +manyissues %>% gather_array('issue') %>% spread_values( + login=jstring('user','login') + , comments=jnumber('comments') + , issuenum = jnumber('number') + , state = jstring('state') +) %>% group_by(login, state) %>% summarize(issuecount=n()) %>% ungroup() %>% + spread(state, issuecount, fill=0) %>% + mutate(total=closed+open) %>% + arrange(desc(total), desc(open)) %>% head(10) +``` + +# CitiBike NYC + +This is a static public API that shows location, status, and current availability for bikes in NYC bike sharing. + +```{r citibike_init, echo=TRUE} +citibike <- as.tbl_json("http://citibikenyc.com/stations/json") + +## We see what we have is an object +citibike %>% json_types() + +## So let's explore that object +citibike %>% gather_object() +``` + +Let's explore the array, but store executionTime for later reference: + +```{r citibike_prep, echo=TRUE} +citibike_list <- citibike %>% + spread_values(execution=jstring(executionTime)) %>% + enter_object('stationBeanList') %>% gather_array('arrayid') + +citibike_list %>% + filter(arrayid==1) %>% + json_schema() %>% prettify() + +``` +### Availability +The percentage availablity of bikes should be linearly correlated. I.e. 25% bikes available means 75% of docks available. +```{r citibike_available, echo=TRUE} +citibike_available <- citibike_list %>% + spread_values(id=jnumber(id) + , location=jstring(location) + , lastCommunication=jstring(lastCommunicationTime) + , availableBikes=jnumber(availableBikes) + , availableDocks=jnumber(availableDocks) + , totalDocks=jnumber(totalDocks)) %>% + mutate(openDockPct=availableDocks / totalDocks + , bikeDockPct=availableBikes / totalDocks + , timeSinceUpdateMinutes=as.integer(as_datetime(execution)-as_datetime(lastCommunication))/60 + , timeSinceUpdateBin=cut(timeSinceUpdateMinutes + ,c(0,1,15,60,6*60,24*60,Inf) + , labels=c('0-1 Min','1-15 Min' + , '15 Min - 1 Hr' + , '1-6 Hr' + , '6-24 Hr' + , '24+ Hr')) + ) + +## Expect generally linear behavior +ggplot(citibike_available, aes(openDockPct, bikeDockPct)) + geom_point() +``` + +And if we are in the process of exploring New York City, we probably care about how many actual bikes / docks are available, and how up-to-date that information is. +```{r citibike_count, echo=TRUE} +ggplot(citibike_available, aes(availableBikes, availableDocks, col=timeSinceUpdateBin)) + + geom_point() + +``` + +### Mapping +Remember that our object is still a tbl_json object, so we can go back and grab additional keys if necessary. What if we wanted to map the data for easier use while we explore the city? +```{r citibike_map_prep, ECHO=TRUE} +citibike_map <- citibike_available %>% + spread_values(lat=jnumber(latitude) + , long=jnumber(longitude)) + +citibike_map %>% group_by(is.na(lat),is.na(long)) %>% summarize(n()) +``` + +It looks like the data are populated, so we should be good to go!! This is a feature we plan to add to this vignette in the future. Data analysis is always more fun with quality visualizations. + +### Consistent Behavior + +One last point of note. What if we got a bad response and our pipeline above was automated? + +```{r citibike_error_test, ECHO=TRUE} +citibike_list_0 <- '{}' %>% + spread_values(execution=jstring(executionTime)) %>% + enter_object('stationBeanList') %>% gather_array('arrayid') + +citibike_available_0 <- citibike_list_0 %>% + spread_values(id=jnumber(id) + , location=jstring(location) + , lastCommunication=jstring(lastCommunicationTime) + , availableBikes=jnumber(availableBikes) + , availableDocks=jnumber(availableDocks) + , totalDocks=jnumber(totalDocks)) %>% + mutate(openDockPct=availableDocks / totalDocks + , bikeDockPct=availableBikes / totalDocks + , timeSinceUpdateMinutes=as.integer(as_datetime(execution)-as_datetime(lastCommunication))/60 + , timeSinceUpdateBin=cut(timeSinceUpdateMinutes + ,c(0,1,15,60,6*60,24*60,Inf) + , labels=c('0-1 Min','1-15 Min' + , '15 Min - 1 Hr' + , '1-6 Hr' + , '6-24 Hr' + , '24+ Hr')) + ) + +ggplot(citibike_available_0, aes(availableBikes, availableDocks, col=timeSinceUpdateBin)) + + geom_point() +``` + +While some may prefer an error (and it would be easy enough to check and implement an error of our own using a package like `assertthat`), this is a powerful feature of the `tidyjson` package that allows us to _be sure_ of the structure of data that we receive from parsing the JSON object. + +So if the API changes its schema, or if the response you receive does not have sufficient data, you can rest assurred that the resulting data structure will conform to the specifications you provide and _stay tidy_. For further information on this, see documentation on `spread_values` (which explicitly defines the data structure you will create) and `spread_all` (which is easier to use when interactively exploring). \ No newline at end of file diff --git a/vignettes/visualizing-json.Rmd b/vignettes/visualizing-json.Rmd index 194c992..ca86058 100644 --- a/vignettes/visualizing-json.Rmd +++ b/vignettes/visualizing-json.Rmd @@ -62,10 +62,17 @@ Before we start, let's load `tidyjson` along with other data manipulation and visualization libraries, and set a seed so we get consistent results. ```{r, message = FALSE} -library(needs) -needs(jsonlite, dplyr, purrr, magrittr, forcats, - ggplot2, igraph, RColorBrewer, wordcloud, viridis, - listviewer) +library(jsonlite) +library(dplyr) +library(purrr) +library(magrittr) +library(forcats) +library(ggplot2) +library(igraph) +library(RColorBrewer) +library(wordcloud) +library(viridis) +library(listviewer) set.seed(1) ``` @@ -126,7 +133,7 @@ function in tidyjson which gives us a `data.frame` where each row corresponds to an object, array or scalar in the JSON document. ```{r} -co_struct <- companies %>% json_structure +co_struct <- companies %>% json_structure() co_struct %>% sample_n(5) ``` @@ -384,7 +391,7 @@ rounds_usd <- rounds %>% filter(!is.na(raised)) %>% select(document.id, round, raised) -rounds_by_geo <- inner_join(rounds_usd, hqs, by = "document.id") +rounds_by_geo <- inner_join(rounds_usd, hqs, by = "document.id") %>% as_tibble() ``` Now we can visualize the results