chore: Bump version in CHANGELOG

chore: Bump version is package.json to v1.5.0
feat!: Remove manual API calling tests
2024-11-23 10:09:54 +00:00 · 2024-01-21 22:09:10 -06:00 · 2024-01-21 22:09:10 -06:00 · 2024-01-21 20:57:22 -06:00 · 2024-01-21 20:57:22 -06:00 · 2024-01-21 20:57:22 -06:00
7 changed files with 281 additions and 244 deletions
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@ -7,14 +7,24 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0

 ## [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

-## 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).
 - Fail instead of warn, when `nextflow help`` doesn't work (#23).

-## Fixed
+### Fixed

 - 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

-## Changed
+### Changed

 - Action now checks tool cache for installed version before querying Octokit (#5/#10)

 ## [1.2.0] - 2022-10-29

-## Added
+### Added

 - `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)

@ -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
 - 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
 [1.3.0]: 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
--- a/action.yml
+++ b/action.yml
@ -14,6 +14,14 @@ inputs:
    description: "GitHub token to access the GitHub Releases API. The default token should be sufficient for all use cases."
    required: false
    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:
  using: "node16"
  main: "dist/index.js"
--- a/package-lock.json
+++ b/package-lock.json
@ -1,6 +1,6 @@
 {
  "name": "install-nextflow-action",
-  "version": "1.4.0",
+  "version": "1.5.0",
  "lockfileVersion": 2,
  "requires": true,
  "packages": {
@ -11,8 +11,9 @@
      "dependencies": {
        "@actions/core": "^1.8.2",
        "@actions/exec": "^1.1.1",
-        "@actions/github": "^5.0.3",
+        "@actions/github": "^6.0.0",
        "@actions/tool-cache": "^2.0.1",
+        "@octokit/plugin-throttling": "^8.1.3",
        "@types/node": "^17.0.44",
        "async-retry": "^1.3.3",
        "semver": "^7.3.7"
@ -55,22 +56,23 @@
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+      "version": "6.0.0",
+      "resolved": "https://registry.npmjs.org/@actions/github/-/github-6.0.0.tgz",
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-        "@octokit/plugin-paginate-rest": "^2.17.0",
-        "@octokit/plugin-rest-endpoint-methods": "^5.13.0"
+        "@actions/http-client": "^2.2.0",
+        "@octokit/core": "^5.0.1",
+        "@octokit/plugin-paginate-rest": "^9.0.0",
+        "@octokit/plugin-rest-endpoint-methods": "^10.0.0"
      }
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      "dependencies": {
-        "tunnel": "^0.0.6"
+        "tunnel": "^0.0.6",
+        "undici": "^5.25.4"
      }
    },
    "node_modules/@actions/io": {
@ -190,6 +192,14 @@
        "url": "https://opencollective.com/eslint"
      }
    },
+    "node_modules/@fastify/busboy": {
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+      "resolved": "https://registry.npmjs.org/@fastify/busboy/-/busboy-2.1.0.tgz",
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@ -299,104 +309,136 @@
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@ -4664,11 +4693,6 @@
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@ -4805,10 +4829,21 @@
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@ -5233,6 +5255,11 @@
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-        "is-plain-object": "^5.0.0",
-        "node-fetch": "^2.6.7",
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+        "@octokit/request-error": "^5.0.0",
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        "universal-user-agent": "^6.0.0"
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    "@octokit/request-error": {
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+      "resolved": "https://registry.npmjs.org/@octokit/request-error/-/request-error-5.0.1.tgz",
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+        "@octokit/types": "^12.0.0",
        "deprecation": "^2.0.0",
        "once": "^1.4.0"
      }
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    "@octokit/types": {
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-      "resolved": "https://registry.npmjs.org/@octokit/types/-/types-6.34.0.tgz",
-      "integrity": "sha512-s1zLBjWhdEI2zwaoSgyOFoKSl109CUcVBCc7biPJ3aAf6LGLU6szDvi31JPU7bxfla2lqfhjbbg/5DdFNxOwHw==",
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+      "resolved": "https://registry.npmjs.org/@octokit/types/-/types-12.4.0.tgz",
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      "requires": {
-        "@octokit/openapi-types": "^11.2.0"
+        "@octokit/openapi-types": "^19.1.0"
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    },
    "@tsconfig/node10": {
@ -5903,6 +5932,11 @@
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      "dev": true
    },
+    "bottleneck": {
+      "version": "2.19.5",
+      "resolved": "https://registry.npmjs.org/bottleneck/-/bottleneck-2.19.5.tgz",
+      "integrity": "sha512-VHiNCbI1lKdl44tGrhNfU3lup0Tj/ZBMJB5/2ZbNXRCPuRCO7ed2mgcK4r17y+KB2EfuYuRaVlwNbAeaWGSpbw=="
+    },
    "brace-expansion": {
      "version": "1.1.11",
      "resolved": "https://registry.npmjs.org/brace-expansion/-/brace-expansion-1.1.11.tgz",
@ -7321,7 +7355,8 @@
    "is-plain-object": {
      "version": "5.0.0",
      "resolved": "https://registry.npmjs.org/is-plain-object/-/is-plain-object-5.0.0.tgz",
-      "integrity": "sha512-VRSzKkbMm5jMDoKLbltAkFQ5Qr7VDiTFGXxYFXXowVj387GeGNOCsOH6Msy00SGZ3Fp84b1Naa1psqgcCIEP5Q=="
+      "integrity": "sha512-VRSzKkbMm5jMDoKLbltAkFQ5Qr7VDiTFGXxYFXXowVj387GeGNOCsOH6Msy00SGZ3Fp84b1Naa1psqgcCIEP5Q==",
+      "dev": true
    },
    "is-promise": {
      "version": "4.0.0",
@ -7683,14 +7718,6 @@
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      "dev": true
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-    "node-fetch": {
-      "version": "2.6.7",
-      "resolved": "https://registry.npmjs.org/node-fetch/-/node-fetch-2.6.7.tgz",
-      "integrity": "sha512-ZjMPFEfVx5j+y2yF35Kzx5sF7kDzxuDj6ziH4FFbOp87zKDZNx8yExJIb05OGF4Nlt9IHFIMBkRl41VdvcNdbQ==",
-      "requires": {
-        "whatwg-url": "^5.0.0"
-      }
-    },
    "node-releases": {
      "version": "2.0.6",
      "resolved": "https://registry.npmjs.org/node-releases/-/node-releases-2.0.6.tgz",
@ -8418,11 +8445,6 @@
        "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": {
      "version": "10.9.1",
      "resolved": "https://registry.npmjs.org/ts-node/-/ts-node-10.9.1.tgz",
@ -8509,10 +8531,18 @@
        "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": {
-      "version": "6.0.0",
-      "resolved": "https://registry.npmjs.org/universal-user-agent/-/universal-user-agent-6.0.0.tgz",
-      "integrity": "sha512-isyNax3wXoKaulPDZWHQqbmIx1k2tb9fb3GGDBRxCscfYV2Ch7WxPArBsFEG8s/safwXTT7H4QGhaIkTp9447w=="
+      "version": "6.0.1",
+      "resolved": "https://registry.npmjs.org/universal-user-agent/-/universal-user-agent-6.0.1.tgz",
+      "integrity": "sha512-yCzhz6FN2wU1NiiQRogkTQszlQSlpWaw8SvVegAc+bDxbzHgh1vX8uIe8OYyMH6DwH+sdTJsgMl36+mSMdRJIQ=="
    },
    "update-browserslist-db": {
      "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=="
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    "well-known-symbols": {
      "version": "2.0.0",
      "resolved": "https://registry.npmjs.org/well-known-symbols/-/well-known-symbols-2.0.0.tgz",
      "integrity": "sha512-ZMjC3ho+KXo0BfJb7JgtQ5IBuvnShdlACNkKkdsqBmYw3bPAaJfPeYUo6tLUaT5tG/Gkh7xkpBhKRQ9e7pyg9Q==",
      "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": {
      "version": "2.0.2",
      "resolved": "https://registry.npmjs.org/which/-/which-2.0.2.tgz",
--- a/package.json
+++ b/package.json
@ -1,6 +1,6 @@
 {
  "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.",
  "main": "lib/src/main.js",
  "scripts": {
@ -48,8 +48,9 @@
  "dependencies": {
    "@actions/core": "^1.8.2",
    "@actions/exec": "^1.1.1",
-    "@actions/github": "^5.0.3",
+    "@actions/github": "^6.0.0",
    "@actions/tool-cache": "^2.0.1",
+    "@octokit/plugin-throttling": "^8.1.3",
    "@types/node": "^17.0.44",
    "async-retry": "^1.3.3",
    "semver": "^7.3.7"
--- a/src/main.ts
+++ b/src/main.ts
@ -21,6 +21,8 @@ async function run(): Promise<void> {
  const token = core.getInput("token")
  const version = core.getInput("version")
  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
  if (check_cache(version)) {
@ -28,7 +30,7 @@ async function run(): Promise<void> {
  }

  // Setup the API
-  const octokit = await setup_octokit(token)
+  const octokit = await setup_octokit(token, cooldown, max_retries)

  const releases = await pull_releases(octokit)

--- a/src/octokit-wrapper.ts
+++ b/src/octokit-wrapper.ts
@ -1,17 +1,46 @@
 import * as core from "@actions/core"
-import * as github from "@actions/github"
-import { GitHub } from "@actions/github/lib/utils"
+import { getOctokitOptions, GitHub } from "@actions/github/lib/utils"
+import { throttling } from "@octokit/plugin-throttling"

 import { nextflow_release, NextflowRelease } from "./nextflow-release"

 const NEXTFLOW_REPO = { owner: "nextflow-io", repo: "nextflow" }

 export async function setup_octokit(
-  github_token: string
+  github_token: string,
+  cooldown = 60,
+  max_retries = 3
 ): Promise<InstanceType<typeof GitHub>> {
+  const throttledOctokit = GitHub.plugin(throttling)
  let octokit = {} as InstanceType<typeof GitHub>
  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) {
    if (e instanceof Error) {
      core.setFailed(
--- a/test/utils.ts
+++ b/test/utils.ts
@ -1,5 +1,3 @@
-import fetch from "node-fetch"
-
 export function getToken(first: boolean): string {
  const token = process.env["GITHUB_TOKEN"] || ""
  if (!token && first) {
@ -12,31 +10,3 @@ export function getToken(first: boolean): string {

  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"
-}
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