pyrox.dev
nixosTests.nextflow: migrate to runTestOn (#399177)
authored by Pol Dellaiera and committed by GitHub 8d74a87f 0159ddab
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-1
nixos/tests/all-tests.nix
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-1
nixos/tests/all-tests.nix
···
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# TODO: put in networking.nix after the test becomes more complete
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networkingProxy = handleTest ./networking-proxy.nix { };
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nextcloud = handleTest ./nextcloud { };
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nextflow = handleTestOn [ "x86_64-linux" ] ./nextflow.nix { };
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nextflow = runTestOn [ "x86_64-linux" ] ./nextflow.nix;
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nextjs-ollama-llm-ui = runTest ./web-apps/nextjs-ollama-llm-ui.nix;
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nexus = handleTest ./nexus.nix { };
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# TODO: Test nfsv3 + Kerberos
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nixos/tests/nextflow.nix
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nixos/tests/nextflow.nix
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import ./make-test-python.nix (
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{ pkgs, ... }:
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let
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bash = pkgs.dockerTools.pullImage {
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imageName = "quay.io/nextflow/bash";
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imageDigest = "sha256:bea0e244b7c5367b2b0de687e7d28f692013aa18970941c7dd184450125163ac";
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sha256 = "161s9f24njjx87qrwq0c9nmnwvyc6iblcxka7hirw78lm7i9x4w5";
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finalImageName = "quay.io/nextflow/bash";
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};
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{ pkgs, ... }:
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let
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bash = pkgs.dockerTools.pullImage {
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imageName = "quay.io/nextflow/bash";
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imageDigest = "sha256:bea0e244b7c5367b2b0de687e7d28f692013aa18970941c7dd184450125163ac";
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sha256 = "161s9f24njjx87qrwq0c9nmnwvyc6iblcxka7hirw78lm7i9x4w5";
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finalImageName = "quay.io/nextflow/bash";
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};
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hello = pkgs.stdenv.mkDerivation {
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name = "nextflow-hello";
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src = pkgs.fetchFromGitHub {
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owner = "nextflow-io";
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repo = "hello";
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rev = "afff16a9b45c8e8a4f5a3743780ac13a541762f8";
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hash = "sha256-c8FirHc+J5Y439g0BdHxRtXVrOAzIrGEKA0m1mp9b/U=";
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};
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installPhase = ''
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cp -r $src $out
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'';
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hello = pkgs.stdenv.mkDerivation {
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name = "nextflow-hello";
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src = pkgs.fetchFromGitHub {
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owner = "nextflow-io";
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repo = "hello";
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rev = "afff16a9b45c8e8a4f5a3743780ac13a541762f8";
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hash = "sha256-c8FirHc+J5Y439g0BdHxRtXVrOAzIrGEKA0m1mp9b/U=";
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};
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run-nextflow-pipeline = pkgs.writeShellApplication {
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name = "run-nextflow-pipeline";
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runtimeInputs = [ pkgs.nextflow ];
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text = ''
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export NXF_OFFLINE=true
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for b in false true; do
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echo "docker.enabled = $b" > nextflow.config
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cat nextflow.config
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nextflow run -ansi-log false ${hello}
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done
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'';
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};
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in
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{
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name = "nextflow";
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installPhase = ''
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cp -r $src $out
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'';
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};
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run-nextflow-pipeline = pkgs.writeShellApplication {
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name = "run-nextflow-pipeline";
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runtimeInputs = [ pkgs.nextflow ];
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text = ''
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export NXF_OFFLINE=true
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for b in false true; do
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echo "docker.enabled = $b" > nextflow.config
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cat nextflow.config
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nextflow run -ansi-log false ${hello}
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done
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'';
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};
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in
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{
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name = "nextflow";
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nodes.machine =
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{ ... }:
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{
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environment.systemPackages = [
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run-nextflow-pipeline
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pkgs.nextflow
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];
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virtualisation = {
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docker.enable = true;
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};
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nodes.machine =
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{ ... }:
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{
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environment.systemPackages = [
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run-nextflow-pipeline
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pkgs.nextflow
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];
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virtualisation = {
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docker.enable = true;
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};
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};
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testScript =
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{ nodes, ... }:
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''
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start_all()
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machine.wait_for_unit("docker.service")
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machine.succeed("docker load < ${bash}")
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machine.succeed("run-nextflow-pipeline >&2")
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'';
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}
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)
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testScript =
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{ nodes, ... }:
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''
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start_all()
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machine.wait_for_unit("docker.service")
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machine.succeed("docker load < ${bash}")
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machine.succeed("run-nextflow-pipeline >&2")
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'';
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}