art: Add nf-core logo to README

Fix testing ci

.github/workflows/example.yml

@@ -42,3 +42,18 @@ jobs:
           version: ${{ matrix.nextflow_version }}
           all: ${{ matrix.all_distribution }}
       - run: nextflow -v
+
+  test-14:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: easimon/maximize-build-space@v7
+      - uses: actions/checkout@v3
+      - uses: actions/setup-node@v3
+        with:
+          node-version: 16
+          cache: "npm"
+      - run: npm ci
+      - run: npm run build
+      - run: npm run package
+      - uses: ./
+      - run: nextflow -v

.github/workflows/publish.yml

@@ -16,6 +16,7 @@ jobs:
       - run: npm ci
       - run: npm run build
       - run: npm run package
+      - run: sed -i 's%lib/src/main.js%dist/index.js%' package.json
       - uses: JasonEtco/build-and-tag-action@v1
         env:
           GITHUB_TOKEN: ${{ github.token }}

.github/workflows/test.yml

@@ -23,5 +23,6 @@ jobs:
       - run: npm run format:check
       - run: npm run lint
       - run: npm run package
-      # FIXME Token doesn't get passed correctly
-      # - run: npm run test
+      - run: npm run test
+        env:
+          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}

CHANGELOG.md

@@ -7,6 +7,18 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ## [Unreleased]
 
+## Changed
+
+- If `fs.renameSync` fails (e.g. because source and destination files are on different partitions), try `fs.copySync` and `fs.unlinkSync` instead (#14).
+
+## Fixed
+
+- Re-enable npm run test in CI (#15).
+
+- Fix release version check in unit test (#15).
+
+- Add helper function for checking the latest releases in the unit tests (#15).
+
 ## [1.3.0] - 2023-05-19
 
 ## Changed

README.md

@@ -1,4 +1,4 @@
-# Setup Nextflow for GitHub Actions
+# ![nf-core/setup-nextflow](docs/images/nfcore-setupnextflow_logo.png#gh-light-mode-only) ![nf-core/setup-nextflow](docs/images/nfcore-setupnextflow_logo_dark.png#gh-dark-mode-only)
 
 [![Testing](https://github.com/nf-core/setup-nextflow/actions/workflows/example.yml/badge.svg)](https://github.com/nf-core/setup-nextflow/actions/workflows/example.yml)
 [![MIT License](https://img.shields.io/github/license/nf-core/setup-nextflow?logo=opensourceinitiative)](https://github.com/nf-core/setup-nextflow/blob/master/LICENSE)

src/functions.ts

@@ -106,7 +106,13 @@ export async function install_nextflow(
   const temp_install_dir = fs.mkdtempSync(`nxf-${version}`)
   const nf_path = `${temp_install_dir}/nextflow`
 
-  fs.renameSync(nf_dl_path, nf_path)
+  try {
+    fs.renameSync(nf_dl_path, nf_path)
+  } catch (err: unknown) {
+    core.debug(`Failed to rename file: ${err}`)
+    fs.copyFileSync(nf_dl_path, nf_path)
+    fs.unlinkSync(nf_dl_path)
+  }
   fs.chmodSync(nf_path, "0711")
 
   return temp_install_dir

test/functions.ts

@@ -3,7 +3,7 @@ import { GitHub } from "@actions/github/lib/utils"
 import anyTest, { TestFn } from "ava" // eslint-disable-line import/no-unresolved
 
 import * as functions from "../src/functions"
-import { getToken } from "./utils"
+import { getReleaseTag, getToken } from "./utils"
 
 const test = anyTest as TestFn<{
   token: string
@@ -29,7 +29,8 @@ test("lastest_stable_release_data", async t => {
     t.context["octokit"]
   )
   t.is(typeof result, "object")
-  t.is(result["tag_name"], "v22.10.2")
+  const expected = await getReleaseTag("nextflow-io/nextflow", false)
+  t.is(result["tag_name"], expected)
 })
 
 test.todo("nextflow_bin_url")

test/releasedata.ts

@@ -3,7 +3,7 @@ import { GitHub } from "@actions/github/lib/utils"
 import anyTest, { TestFn } from "ava" // eslint-disable-line import/no-unresolved
 
 import { release_data } from "../src/functions"
-import { getToken } from "./utils"
+import { getReleaseTag, getToken } from "./utils"
 
 const test = anyTest as TestFn<{
   token: string
@@ -19,12 +19,22 @@ test.before(t => {
   }
 })
 
-const macro = test.macro(async (t, version: string, expected: string) => {
+const macro = test.macro(async (t, version: string) => {
+  let expected
+  if (version === "latest-stable") {
+    expected = await getReleaseTag("nextflow-io/nextflow", false)
+  } else if (version === "latest-edge") {
+    expected = await getReleaseTag("nextflow-io/nextflow", true)
+  } else if (version === "latest-everything") {
+    expected = await getReleaseTag("nextflow-io/nextflow", undefined)
+  } else {
+    expected = version
+  }
   const result = await release_data(version, t.context["octokit"])
   t.is(result["tag_name"], expected)
 })
 
-test("hard version", macro, "v22.10.2", "v22.10.2")
-test("latest-stable", macro, "latest-stable", "v22.10.2")
-test("latest-edge", macro, "latest-edge", "v22.09.7-edge")
-test("latest-everything", macro, "latest-everything", "v22.10.2")
+test("hard version", macro, "v22.10.2")
+test("latest-stable", macro, "latest-stable")
+test("latest-edge", macro, "latest-edge")
+test("latest-everything", macro, "latest-everything")

test/utils.ts

@@ -1,3 +1,5 @@
+import fetch from "node-fetch"
+
 export function getToken(first: boolean): string {
   const token = process.env["GITHUB_TOKEN"] || ""
   if (!token && first) {
@@ -10,3 +12,31 @@ 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"
+}