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create-json.yml
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# # Convert info from a Github issue from the onboarding form into json.
name: create JSON
on:
issues:
types: [opened]
jobs:
create-json:
if: contains(github.event.issue.labels.*.name, 'Onboarding Request')
runs-on: ubuntu-latest
env:
GITHUB_PAT: ${{ secrets.API_TOKEN_GITHUB }}
steps:
- name: checkout toolbox_web_templating repo
uses: actions/checkout@v3
with:
repository: noaa-fisheries-integrated-toolbox/toolbox_web_templating
ref: dev
- name: install R
uses: r-lib/actions/setup-r@v2
- name: install libcurl
run: sudo apt-get install -y libcurl4-openssl-dev
- name: install R packages
run: |
install.packages("gh")
install.packages("jsonlite")
install.packages("rlang")
shell: Rscript {0}
- name: run R script
run: |
library(gh)
library(jsonlite)
issue_info <- gh("/repos/{owner}/{repo}/issues/{issue_number}",
owner = "noaa-fisheries-integrated-toolbox",
repo = "onboard-and-update",
issue_number = ${{ github.event.issue.number }}
)
issue_body <- issue_info$body
# break up different form sections
issue_body <- strsplit(issue_body, "### ", fixed = TRUE)[[1]]
# break up headers from content
issue_body <- strsplit(issue_body, "(\n\n)|(\r\n\r\n)")
# rm no response components
issue_body <- lapply(issue_body, function(x) {
nr <- grep("_No response_", x, fixed = TRUE)
if(length(nr) > 0) {
return(NULL)
}
x
})
# remove nulls and anything of length 0
issue_body <- issue_body[lengths(issue_body) != 0]
# convert the JSON component names
issue_body <- lapply(issue_body, function(x) {
json_title <- tolower(x[1])
json_title <- gsub(" ", "_", json_title, fixed = TRUE)
json_title <- gsub("(", "", json_title, fixed = TRUE)
json_title <- gsub(")", "", json_title, fixed = TRUE)
x[1] <- json_title
x
})
# make names the title instead of a part of the list
names(issue_body) <- unlist(lapply(issue_body, function(x) x[1]))
issue_body <- lapply(issue_body, function(x) x[-1])
# Get rid of comments and code of conduct, not needed
# in the json
issue_body$comments <- NULL
issue_body$code_of_conduct <- NULL
# Now make changes needed for specific elements to be correct in JSON.
# Format boolean inputs
issue_body$active_development <-
ifelse(issue_body$active_development == "Yes",TRUE, FALSE)
issue_body$noaa_internal <-
ifelse(issue_body$noaa_internal == "Yes", TRUE, FALSE)
issue_body$uses_github_releases <-
ifelse(issue_body$uses_github_releases == "Yes", TRUE, FALSE)
# format toolbox drawers and keywords
format_checkboxes <- function(original_checkboxes) {
tmp_boxes <- strsplit(original_checkboxes, "\n", fixed = TRUE)[[1]]
tmp_boxes <- grep("[X]", tmp_boxes, fixed = TRUE, value = TRUE)
tmp_boxes <- strsplit(tmp_boxes, "- [X] ", fixed = TRUE)
tmp_boxes <- unlist(lapply(tmp_boxes, function(x) x[2]))
tmp_boxes
}
issue_body$toolbox_drawers <-
format_checkboxes(issue_body$toolbox_drawers)
issue_body$keywords <-
format_checkboxes(issue_body$keywords)
# format other array inputs
if(!is.null(issue_body$references)) {
tmp_refs <- issue_body$references
tmp_refs <- strsplit(tmp_refs, "(\\r)|(\\n)")[[1]]
issue_body$references <- tmp_refs
}
if(!is.null(issue_body$associated_tools)) {
tmp_tools <- issue_body$associated_tools
tmp_tools <- strsplit(tmp_tools, ",", fixed = TRUE)[[1]]
tmp_tools <- gsub("(\n)|(\r)", "", tmp_tools)
tmp_tools <- strsplit(tmp_tools, " http", fixed = TRUE)
tmp_tools <- lapply(tmp_tools, function(x) {
x[2] <- paste0("http", x[2])
names(x) <- c("name", "link")
x <- as.list(x)
# mark as singletons
x[["name"]] <- unbox(x[["name"]])
x[["link"]] <- unbox(x[["link"]])
x
})
issue_body$associated_tools <- tmp_tools
}
if(!is.null(issue_body$user_organizations)) {
tmp_orgs <- issue_body$user_organizations
tmp_orgs <- strsplit(tmp_orgs, ",\\s*")[[1]]
issue_body$user_organizations <- tmp_orgs
}
if(!is.null(issue_body$software_badges)) {
tmp_badges <- issue_body$software_badges
tmp_badges <- strsplit(tmp_badges, ",\\s*")[[1]]
issue_body$software_badges <- tmp_badges
}
# mark singletons before converting to JSON
issue_body$active_development <- unbox(issue_body$active_development)
issue_body$tool_name <- unbox(issue_body$tool_name)
issue_body$tool_abbreviation <- unbox(issue_body$tool_abbreviation)
issue_body$authors <- unbox(issue_body$authors)
issue_body$noaa_internal <- unbox(issue_body$noaa_internal)
issue_body$maintainer_name <- unbox(issue_body$maintainer_name)
issue_body$maintainer_email <- unbox(issue_body$maintainer_email)
issue_body$background_text <- unbox(issue_body$background_text)
issue_body$citation <- unbox(issue_body$citation)
issue_body$online_app_link <- unbox(issue_body$online_app_link)
issue_body$executable_link <- unbox(issue_body$executable_link)
issue_body$website_link <- unbox(issue_body$website_link)
issue_body$documentation_link <- unbox(issue_body$documentation_link)
issue_body$source_code_link <- unbox(issue_body$source_code_link)
issue_body$pdf_download_link <- unbox(issue_body$pdf_download_link)
issue_body$uses_github_releases <- unbox(issue_body$uses_github_releases)
issue_body$static_version_number <- unbox(issue_body$static_version_number)
issue_body$release_badge <- unbox(issue_body$release_badge)
# to write to a file:
#jsonlite::write_json(issue_body, "test.JSON", pretty = TRUE)
txt <- jsonlite::toJSON(issue_body, pretty = TRUE)
txt <- gsub("\\r", "", txt, fixed = TRUE)
markdown_txt <- paste("Automatically generated JSON for the onboarding request: ", "```",
txt, "```", sep = "\n"
)
# post json as a comment on the issue
gh("POST /repos/{owner}/{repo}/issues/{issue_number}/comments",
owner = "noaa-fisheries-integrated-toolbox",
repo = "onboard-and-update",
issue_number = ${{ github.event.issue.number }},
body = markdown_txt)
# # open an issue in the templating repo - this works great!
# issue_external <- paste(
# paste0("Onboarding request from https://github.com/noaa-fisheries-integrated-toolbox/onboard-and-update/issues/", issue_info$number),
# "Automatically generated JSON for the onboarding request: ", "```",
# txt, "```", sep = "\n")
# issue_title <- paste0("Onboard new tool from onboard-and-update: # ", issue_info$number)
# gh::gh("POST /repos/{owner}/{repo}/issues",
# owner = "noaa-fisheries-integrated-toolbox",
# repo = "toolbox_web_templating",
# title = issue_title,
# body = issue_external)
# write json to file
newjson <- "newjson"
dir.create(newjson)
writeLines(txt, file.path(newjson,paste0(issue_body$tool_abbreviation, ".json")))
shell: Rscript {0}
# - name: add new json to the toolbox web templating
# run: |
# # add json file(s)
# json <- list.files("newjson")
# json <- grep(".json", json, fixed = TRUE, value = TRUE)
# file.copy(from = file.path("newjson", json), to = file.path("model_list_dir", json), overwrite = FALSE)
# # add json file name to browse_config.json
# config <- jsonlite::read_json(file.path("Browse_config.json"), simplifyVector = TRUE)
# json_no_file_ext <- gsub(".json", "", json, fixed = TRUE)
# config$list_of_models <- c(config$list_of_models, json_no_file_ext)
# jsonlite::write_json(config, file.path("Browse_config.json"), pretty = TRUE, simplifyVector = TRUE, auto_unbox = TRUE)
# shell: Rscript {0}
# This had some issues.
# - name: submit pull request to the toolbox_web_templating repo
# uses: peter-evans/create-pull-request@v4
# with:
# token: API_TOKEN_GITHUB
# path: templating
# add-paths: templating/Browse_config.json, templating/model_list_dir/*.json
# committer: Kathryn Doering <kathryn.doering@noaa.gov>
# author: Kathryn Doering <kathryn.doering@noaa.gov>
# commit-message: 'Onboard new tool'
# branch: onboard-new-tool
# base: dev
# title: 'Onboard new tool'
# body: Auto-generated from https://github.com/noaa-fisheries-integrated-toolbox/onboard-and-update
# reviewers: k-doering-NOAA
# This didn't work perfectly, unfortunately. Generates an error when run, even though it does what we want
# - name: Pushes file to repo branch
# continue-on-error: true
# uses: dmnemec/copy_file_to_another_repo_action@main
# env:
# API_TOKEN_GITHUB: ${{ secrets.API_TOKEN_GITHUB }}
# with:
# source_file: 'Browse_config.json'
# destination_repo: 'noaa-fisheries-integrated-toolbox/toolbox_web_templating'
# destination_folder: '.'
# user_email: 'kathryn.doering@noaa.gov'
# user_name: 'k-doering-NOAA'
# commit_message: 'onboard new tool, config file'
# destination_branch: 'dev'
# destination_branch_create: 'onboarding${{github.event.issue.number}}'
# - name: Pushes file to repo branch
# continue-on-error: true
# uses: dmnemec/copy_file_to_another_repo_action@main
# env:
# API_TOKEN_GITHUB: ${{ secrets.API_TOKEN_GITHUB }}
# with:
# source_file: 'model_list_dir'
# destination_repo: 'noaa-fisheries-integrated-toolbox/toolbox_web_templating'
# destination_folder: '.'
# user_email: 'kathryn.doering@noaa.gov'
# user_name: 'k-doering-NOAA'
# commit_message: 'onboard new tool, model json files'
# destination_branch: 'onboarding${{github.event.issue.number}}'
# for some reason, this does not open the pull request
# - name: 'Create Pull Request'
# continue-on-error: true
# uses: actions/github-script@v6
# with:
# github-token: ${{ secrets.API_TOKEN_GITHUB }}
# script: |
# github.rest.pulls.create({owner: 'noaa-fisheries-integrated-toolbox',
# repo: 'toolbox_web_templating',
# title: 'Onboard new tool',
# head: 'onboarding${context.issue.number}',
# body: 'Info based on https://github.com/noaa-fisheries-integrated-toolbox/onboard-and-update/issues/${context.issue.number}'
# base: 'dev'});