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b30f81e0d5 ... d52c98d592

Author SHA1 Message Date
Thomas A. Christensen II
d52c98d592 chore: Bump version in CHANGELOG 2024-01-21 22:09:10 -06:00
Thomas A. Christensen II
77d8bbb78a chore: Bump version is package.json to v1.5.0 2024-01-21 22:09:10 -06:00
Thomas A. Christensen II
2098c3cdb2 feat!: Remove manual API calling tests 
These tests are no longer used since the switch to OctokitWrapper, and
conflict with packages required for the implementation of throttling, so
remove them.
 2024-01-21 20:57:22 -06:00
Thomas A. Christensen II
8982670453 chore: Update CHANGELOG 2024-01-21 20:57:22 -06:00
Thomas A. Christensen II
ad67a7e0bd feat: Pass action inputs to OctkitWrapper 2024-01-21 20:57:22 -06:00
Thomas A. Christensen II
d8ab760f18 chore: Remove unused imports 2024-01-21 20:57:22 -06:00
Thomas A. Christensen II
803f3d4782 feat: Add throttling to OctkitWrapper 2024-01-21 20:57:22 -06:00
Thomas A. Christensen II
0e885a8e09 chore: Update GitHub actions package to v6.0.0 
The GitHub actions API changes the underlying type structure to allow
for plugins like the throttling plugin at v6, so update to that version.
 2024-01-21 20:57:22 -06:00
Thomas A. Christensen II
120ab3178f feat: Add max-retries parameter to action inputs 2024-01-21 20:57:22 -06:00
Thomas A. Christensen II
a60acb2a32 feat: Add cooldown parameter to action inputs 2024-01-21 20:57:22 -06:00
Thomas A. Christensen II
37825f6967 chore: Install Octokit throttling plugin package 2024-01-21 20:57:22 -06:00
7 changed files with 281 additions and 244 deletions
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23
CHANGELOG.md
View file

@ -7,14 +7,24 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
## [Unreleased] ## [Unreleased]
## [1.5.0] - 2024-01-22
### Added
- Throttling support to retry failed API calls (#31)
### Changed
- Octokit API calls refactored and separated from install script (#29)
## [1.4.0] - 2023-08-12 ## [1.4.0] - 2023-08-12
## Changed ### Changed
- If `fs.renameSync` fails (e.g. because source and destination files are on different partitions), try `fs.copySync` and `fs.unlinkSync` instead (#14). - If `fs.renameSync` fails (e.g. because source and destination files are on different partitions), try `fs.copySync` and `fs.unlinkSync` instead (#14).
- Fail instead of warn, when `nextflow help`` doesn't work (#23). - Fail instead of warn, when `nextflow help`` doesn't work (#23).
## Fixed ### Fixed
- Re-enable npm run test in CI (#15). - Re-enable npm run test in CI (#15).
@ -24,17 +34,17 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
## [1.3.0] - 2023-05-19 ## [1.3.0] - 2023-05-19
## Changed ### Changed
- Action now checks tool cache for installed version before querying Octokit (#5/#10) - Action now checks tool cache for installed version before querying Octokit (#5/#10)
## [1.2.0] - 2022-10-29 ## [1.2.0] - 2022-10-29
## Added ### Added
- `CAPSULE_LOG` is now set to 'none' for less verbose setup logs (#1/#2) - `CAPSULE_LOG` is now set to 'none' for less verbose setup logs (#1/#2)
## Fixed ### Fixed
- Release list now paginates the API to find old versions of Nextflow (#3) - Release list now paginates the API to find old versions of Nextflow (#3)
@ -58,7 +68,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
- GitHub Actions workflow to test Nextflow installation and downstream usage - GitHub Actions workflow to test Nextflow installation and downstream usage
- Documentation and license files - Documentation and license files
[unreleased]: https://github.com/nf-core/setup-nextflow/compare/v1.4.0...HEAD [unreleased]: https://github.com/nf-core/setup-nextflow/compare/v1.5.0...HEAD
[1.5.0]: https://github.com/nf-core/setup-nextflow/compare/v1.4.0...v1.5.0
[1.4.0]: https://github.com/nf-core/setup-nextflow/compare/v1.3.0...v1.4.0 [1.4.0]: https://github.com/nf-core/setup-nextflow/compare/v1.3.0...v1.4.0
[1.3.0]: https://github.com/nf-core/setup-nextflow/compare/v1.2.0...v1.3.0 [1.3.0]: https://github.com/nf-core/setup-nextflow/compare/v1.2.0...v1.3.0
[1.2.0]: https://github.com/nf-core/setup-nextflow/compare/v1.1.1...v1.2.0 [1.2.0]: https://github.com/nf-core/setup-nextflow/compare/v1.1.1...v1.2.0

8
action.yml
View file

@ -14,6 +14,14 @@ inputs:
description: "GitHub token to access the GitHub Releases API. The default token should be sufficient for all use cases." description: "GitHub token to access the GitHub Releases API. The default token should be sufficient for all use cases."
required: false required: false
default: ${{ github.token }} default: ${{ github.token }}
cooldown:
description: "Time (in seconds) to wait before querying the GitHub Releases API in the case of hitting a rate limit."
required: false
default: "60"
max-retries:
description: "The number of times that to try querying the GitHub Releases API in case of a rate-limited failure."
required: false
default: "3"
runs: runs:
using: "node16" using: "node16"
main: "dist/index.js" main: "dist/index.js"

418
package-lock.json generated
View file

@ -1,6 +1,6 @@
{ {
"name": "install-nextflow-action", "name": "install-nextflow-action",
"version": "1.4.0", "version": "1.5.0",
"lockfileVersion": 2, "lockfileVersion": 2,
"requires": true, "requires": true,
"packages": { "packages": {
@ -11,8 +11,9 @@
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"@actions/exec": "^1.1.1", "@actions/exec": "^1.1.1",
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"@types/node": "^17.0.44", "@types/node": "^17.0.44",
"async-retry": "^1.3.3", "async-retry": "^1.3.3",
"semver": "^7.3.7" "semver": "^7.3.7"
@ -55,22 +56,23 @@
} }
}, },
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"version": "5.0.3", "version": "6.0.0",
"resolved": "https://registry.npmjs.org/@actions/github/-/github-5.0.3.tgz", "resolved": "https://registry.npmjs.org/@actions/github/-/github-6.0.0.tgz",
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} }
}, },
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"resolved": "https://registry.npmjs.org/@actions/http-client/-/http-client-2.0.1.tgz", "resolved": "https://registry.npmjs.org/@actions/http-client/-/http-client-2.2.0.tgz",
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} }
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"node_modules/@actions/io": { "node_modules/@actions/io": {
@ -190,6 +192,14 @@
"url": "https://opencollective.com/eslint" "url": "https://opencollective.com/eslint"
} }
}, },
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"resolved": "https://registry.npmjs.org/@fastify/busboy/-/busboy-2.1.0.tgz",
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}
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"resolved": "https://registry.npmjs.org/@github/browserslist-config/-/browserslist-config-1.0.0.tgz", "resolved": "https://registry.npmjs.org/@github/browserslist-config/-/browserslist-config-1.0.0.tgz",
@ -299,104 +309,136 @@
} }
}, },
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} }
}, },
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}, },
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@ -3071,6 +3118,7 @@
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"resolved": "https://registry.npmjs.org/node-releases/-/node-releases-2.0.6.tgz", "resolved": "https://registry.npmjs.org/node-releases/-/node-releases-2.0.6.tgz",
@ -8418,11 +8445,6 @@
"is-number": "^7.0.0" "is-number": "^7.0.0"
} }
}, },
"tr46": {
"version": "0.0.3",
"resolved": "https://registry.npmjs.org/tr46/-/tr46-0.0.3.tgz",
"integrity": "sha512-N3WMsuqV66lT30CrXNbEjx4GEwlow3v6rr4mCcv6prnfwhS01rkgyFdjPNBYd9br7LpXV1+Emh01fHnq2Gdgrw=="
},
"ts-node": { "ts-node": {
"version": "10.9.1", "version": "10.9.1",
"resolved": "https://registry.npmjs.org/ts-node/-/ts-node-10.9.1.tgz", "resolved": "https://registry.npmjs.org/ts-node/-/ts-node-10.9.1.tgz",
@ -8509,10 +8531,18 @@
"which-boxed-primitive": "^1.0.2" "which-boxed-primitive": "^1.0.2"
} }
}, },
"undici": {
"version": "5.28.2",
"resolved": "https://registry.npmjs.org/undici/-/undici-5.28.2.tgz",
"integrity": "sha512-wh1pHJHnUeQV5Xa8/kyQhO7WFa8M34l026L5P/+2TYiakvGy5Rdc8jWZVyG7ieht/0WgJLEd3kcU5gKx+6GC8w==",
"requires": {
"@fastify/busboy": "^2.0.0"
}
},
"universal-user-agent": { "universal-user-agent": {
"version": "6.0.0", "version": "6.0.1",
"resolved": "https://registry.npmjs.org/universal-user-agent/-/universal-user-agent-6.0.0.tgz", "resolved": "https://registry.npmjs.org/universal-user-agent/-/universal-user-agent-6.0.1.tgz",
"integrity": "sha512-isyNax3wXoKaulPDZWHQqbmIx1k2tb9fb3GGDBRxCscfYV2Ch7WxPArBsFEG8s/safwXTT7H4QGhaIkTp9447w==" "integrity": "sha512-yCzhz6FN2wU1NiiQRogkTQszlQSlpWaw8SvVegAc+bDxbzHgh1vX8uIe8OYyMH6DwH+sdTJsgMl36+mSMdRJIQ=="
}, },
"update-browserslist-db": { "update-browserslist-db": {
"version": "1.0.10", "version": "1.0.10",
@ -8567,26 +8597,12 @@
} }
} }
}, },
"webidl-conversions": {
"version": "3.0.1",
"resolved": "https://registry.npmjs.org/webidl-conversions/-/webidl-conversions-3.0.1.tgz",
"integrity": "sha512-2JAn3z8AR6rjK8Sm8orRC0h/bcl/DqL7tRPdGZ4I1CjdF+EaMLmYxBHyXuKL849eucPFhvBoxMsflfOb8kxaeQ=="
},
"well-known-symbols": { "well-known-symbols": {
"version": "2.0.0", "version": "2.0.0",
"resolved": "https://registry.npmjs.org/well-known-symbols/-/well-known-symbols-2.0.0.tgz", "resolved": "https://registry.npmjs.org/well-known-symbols/-/well-known-symbols-2.0.0.tgz",
"integrity": "sha512-ZMjC3ho+KXo0BfJb7JgtQ5IBuvnShdlACNkKkdsqBmYw3bPAaJfPeYUo6tLUaT5tG/Gkh7xkpBhKRQ9e7pyg9Q==", "integrity": "sha512-ZMjC3ho+KXo0BfJb7JgtQ5IBuvnShdlACNkKkdsqBmYw3bPAaJfPeYUo6tLUaT5tG/Gkh7xkpBhKRQ9e7pyg9Q==",
"dev": true "dev": true
}, },
"whatwg-url": {
"version": "5.0.0",
"resolved": "https://registry.npmjs.org/whatwg-url/-/whatwg-url-5.0.0.tgz",
"integrity": "sha512-saE57nupxk6v3HY35+jzBwYa0rKSy0XR8JSxZPwgLr7ys0IBzhGviA1/TUGJLmSVqs8pb9AnvICXEuOHLprYTw==",
"requires": {
"tr46": "~0.0.3",
"webidl-conversions": "^3.0.0"
}
},
"which": { "which": {
"version": "2.0.2", "version": "2.0.2",
"resolved": "https://registry.npmjs.org/which/-/which-2.0.2.tgz", "resolved": "https://registry.npmjs.org/which/-/which-2.0.2.tgz",

5
package.json
View file

@ -1,6 +1,6 @@
{ {
"name": "install-nextflow-action", "name": "install-nextflow-action",
"version": "1.4.0", "version": "1.5.0",
"description": "An action to install Nextflow into a GitHub Actions workflow and make it available for subsequent steps.", "description": "An action to install Nextflow into a GitHub Actions workflow and make it available for subsequent steps.",
"main": "lib/src/main.js", "main": "lib/src/main.js",
"scripts": { "scripts": {
@ -48,8 +48,9 @@
"dependencies": { "dependencies": {
"@actions/core": "^1.8.2", "@actions/core": "^1.8.2",
"@actions/exec": "^1.1.1", "@actions/exec": "^1.1.1",
"@actions/github": "^5.0.3", "@actions/github": "^6.0.0",
"@actions/tool-cache": "^2.0.1", "@actions/tool-cache": "^2.0.1",
"@octokit/plugin-throttling": "^8.1.3",
"@types/node": "^17.0.44", "@types/node": "^17.0.44",
"async-retry": "^1.3.3", "async-retry": "^1.3.3",
"semver": "^7.3.7" "semver": "^7.3.7"

4
src/main.ts
View file

@ -21,6 +21,8 @@ async function run(): Promise<void> {
const token = core.getInput("token") const token = core.getInput("token")
const version = core.getInput("version") const version = core.getInput("version")
const get_all = core.getBooleanInput("all") const get_all = core.getBooleanInput("all")
const cooldown = Number(core.getInput("cooldown"))
const max_retries = Number(core.getInput("max-retries"))
// Check the cache for the Nextflow version that matched last time // Check the cache for the Nextflow version that matched last time
if (check_cache(version)) { if (check_cache(version)) {
@ -28,7 +30,7 @@ async function run(): Promise<void> {
} }
// Setup the API // Setup the API
const octokit = await setup_octokit(token) const octokit = await setup_octokit(token, cooldown, max_retries)
const releases = await pull_releases(octokit) const releases = await pull_releases(octokit)

37
src/octokit-wrapper.ts
View file

@ -1,17 +1,46 @@
import * as core from "@actions/core" import * as core from "@actions/core"
import * as github from "@actions/github" import { getOctokitOptions, GitHub } from "@actions/github/lib/utils"
import { GitHub } from "@actions/github/lib/utils" import { throttling } from "@octokit/plugin-throttling"
import { nextflow_release, NextflowRelease } from "./nextflow-release" import { nextflow_release, NextflowRelease } from "./nextflow-release"
const NEXTFLOW_REPO = { owner: "nextflow-io", repo: "nextflow" } const NEXTFLOW_REPO = { owner: "nextflow-io", repo: "nextflow" }
export async function setup_octokit( export async function setup_octokit(
github_token: string github_token: string,
cooldown = 60,
max_retries = 3
): Promise<InstanceType<typeof GitHub>> { ): Promise<InstanceType<typeof GitHub>> {
const throttledOctokit = GitHub.plugin(throttling)
let octokit = {} as InstanceType<typeof GitHub> let octokit = {} as InstanceType<typeof GitHub>
try { try {
octokit = github.getOctokit(github_token) octokit = new throttledOctokit(
getOctokitOptions(github_token, {
throttle: {
onRateLimit: (retryAfter, options, ok, retryCount) => {
ok.log.warn(
`Request quota exhausted for request ${options.method} ${options.url}`
)
if (retryCount < max_retries) {
ok.log.info(`Retrying after ${retryAfter} seconds!`)
return true
}
},
onSecondaryRateLimit: (retryAfter, options, ok, retryCount) => {
ok.log.warn(
`SecondaryRateLimit detected for request ${options.method} ${options.url}`
)
if (retryCount < max_retries) {
octokit.log.info(`Retrying after ${retryAfter} seconds!`)
return true
}
},
fallbackSecondaryRateRetryAfter: cooldown
}
})
)
} catch (e: unknown) { } catch (e: unknown) {
if (e instanceof Error) { if (e instanceof Error) {
core.setFailed( core.setFailed(

30
test/utils.ts
View file

@ -1,5 +1,3 @@
import fetch from "node-fetch"
export function getToken(first: boolean): string { export function getToken(first: boolean): string {
const token = process.env["GITHUB_TOKEN"] || "" const token = process.env["GITHUB_TOKEN"] || ""
if (!token && first) { if (!token && first) {
@ -12,31 +10,3 @@ export function getToken(first: boolean): string {
return token return token
} }
/**
* Retrieves the release from a GitHub repository. This function allows to fetch
* either the latest release or the latest pre-release ("edge" release).
*
* @param {string} repo - The GitHub repository to fetch the release from,
* in the format 'owner/repo'.
* @param {boolean} [prerelease] - If true, fetches the latest pre-release.
* If false or undefined, fetches the latest release regardless of whether
* it's a pre-release or not.
*
* @returns {Promise<string>} A Promise that resolves to a string representing the tag name
* of the found release. If no release is found, the Promise resolves to 'Release not found'.
*/
export async function getReleaseTag(
repo: string,
prerelease?: boolean
): Promise<string> {
const response = await fetch(`https://api.github.com/repos/${repo}/releases`)
const releases = await response.json()
const release = releases.find(
/* eslint-disable-next-line @typescript-eslint/no-explicit-any */
(rel: any) => prerelease === undefined || rel.prerelease === prerelease
)
return release ? release.tag_name : "No release found"
}