From 8d15ee11acca4b076a427362ea3f3097a4f2b6c0 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Rolf=20Schr=C3=B6der?= <rolf.schroeder@limbus-medtec.com>
Date: Tue, 24 Sep 2024 05:57:38 +0200
Subject: [PATCH] tests/nextflow: init

---
 nixos/tests/all-tests.nix                     |  1 +
 nixos/tests/nextflow.nix                      | 60 +++++++++++++++++++
 .../interpreters/nextflow/default.nix         |  2 +
 3 files changed, 63 insertions(+)
 create mode 100644 nixos/tests/nextflow.nix

diff --git a/nixos/tests/all-tests.nix b/nixos/tests/all-tests.nix
index 15efe3a06b56..5bdd0a1a7aa1 100644
--- a/nixos/tests/all-tests.nix
+++ b/nixos/tests/all-tests.nix
@@ -658,6 +658,7 @@ in {
   # TODO: put in networking.nix after the test becomes more complete
   networkingProxy = handleTest ./networking-proxy.nix {};
   nextcloud = handleTest ./nextcloud {};
+  nextflow = handleTest ./nextflow.nix {};
   nextjs-ollama-llm-ui = runTest ./web-apps/nextjs-ollama-llm-ui.nix;
   nexus = handleTest ./nexus.nix {};
   # TODO: Test nfsv3 + Kerberos
diff --git a/nixos/tests/nextflow.nix b/nixos/tests/nextflow.nix
new file mode 100644
index 000000000000..b4aad98483b9
--- /dev/null
+++ b/nixos/tests/nextflow.nix
@@ -0,0 +1,60 @@
+import ./make-test-python.nix (
+  { pkgs, ... }:
+  let
+    bash = pkgs.dockerTools.pullImage {
+      imageName = "quay.io/nextflow/bash";
+      imageDigest = "sha256:bea0e244b7c5367b2b0de687e7d28f692013aa18970941c7dd184450125163ac";
+      sha256 = "161s9f24njjx87qrwq0c9nmnwvyc6iblcxka7hirw78lm7i9x4w5";
+      finalImageName = "quay.io/nextflow/bash";
+    };
+
+    hello = pkgs.stdenv.mkDerivation {
+      name = "nextflow-hello";
+      src = pkgs.fetchFromGitHub {
+        owner = "nextflow-io";
+        repo = "hello";
+        rev = "afff16a9b45c8e8a4f5a3743780ac13a541762f8";
+        hash = "sha256-c8FirHc+J5Y439g0BdHxRtXVrOAzIrGEKA0m1mp9b/U=";
+      };
+      installPhase = ''
+        cp -r $src $out
+      '';
+    };
+    run-nextflow-pipeline = pkgs.writeShellApplication {
+      name = "run-nextflow-pipeline";
+      runtimeInputs = [ pkgs.nextflow ];
+      text = ''
+        export NXF_OFFLINE=true
+        for b in false true; do
+          echo "docker.enabled = $b" > nextflow.config
+          cat nextflow.config
+          nextflow run -ansi-log false ${hello}
+        done
+      '';
+    };
+  in
+  {
+    name = "nextflow";
+
+    nodes.machine =
+      { ... }:
+      {
+        environment.systemPackages = [
+          run-nextflow-pipeline
+          pkgs.nextflow
+        ];
+        virtualisation = {
+          docker.enable = true;
+        };
+      };
+
+    testScript =
+      { nodes, ... }:
+      ''
+        start_all()
+        machine.wait_for_unit("docker.service")
+        machine.succeed("docker load < ${bash}")
+        machine.succeed("run-nextflow-pipeline >&2")
+      '';
+  }
+)
diff --git a/pkgs/development/interpreters/nextflow/default.nix b/pkgs/development/interpreters/nextflow/default.nix
index 3b2a41919a06..e76265f63d35 100644
--- a/pkgs/development/interpreters/nextflow/default.nix
+++ b/pkgs/development/interpreters/nextflow/default.nix
@@ -12,6 +12,7 @@
   coreutils,
   bash,
   testers,
+  nixosTests,
 }:
 stdenv.mkDerivation (finalAttrs: {
   pname = "nextflow";
@@ -83,6 +84,7 @@ stdenv.mkDerivation (finalAttrs: {
       --set JAVA_HOME ${openjdk.home}
   '';
 
+  passthru.tests.default = nixosTests.nextflow;
   # versionCheckHook doesn't work as of 2024-09-23.
   # See https://github.com/NixOS/nixpkgs/pull/339197#issuecomment-2363495060
   passthru.tests.version = testers.testVersion {