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nixosTests.nextflow: migrate to runTestOn

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Part of #386873
This commit is contained in:
Piotr Kwiecinski 2025-04-16 13:47:54 +02:00
parent d3f5b059bb
commit 1cfcbd9a94
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2 changed files with 55 additions and 57 deletions
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2
nixos/tests/all-tests.nix
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@ -885,7 +885,7 @@ in
# TODO: put in networking.nix after the test becomes more complete # TODO: put in networking.nix after the test becomes more complete
networkingProxy = handleTest ./networking-proxy.nix { }; networkingProxy = handleTest ./networking-proxy.nix { };
nextcloud = handleTest ./nextcloud { }; nextcloud = handleTest ./nextcloud { };
nextflow = handleTestOn [ "x86_64-linux" ] ./nextflow.nix { }; nextflow = runTestOn [ "x86_64-linux" ] ./nextflow.nix;
nextjs-ollama-llm-ui = runTest ./web-apps/nextjs-ollama-llm-ui.nix; nextjs-ollama-llm-ui = runTest ./web-apps/nextjs-ollama-llm-ui.nix;
nexus = handleTest ./nexus.nix { }; nexus = handleTest ./nexus.nix { };
# TODO: Test nfsv3 + Kerberos # TODO: Test nfsv3 + Kerberos

110
nixos/tests/nextflow.nix
View file

@ -1,60 +1,58 @@
import ./make-test-python.nix ( { pkgs, ... }:
{ pkgs, ... }: let
let bash = pkgs.dockerTools.pullImage {
bash = pkgs.dockerTools.pullImage { imageName = "quay.io/nextflow/bash";
imageName = "quay.io/nextflow/bash"; imageDigest = "sha256:bea0e244b7c5367b2b0de687e7d28f692013aa18970941c7dd184450125163ac";
imageDigest = "sha256:bea0e244b7c5367b2b0de687e7d28f692013aa18970941c7dd184450125163ac"; sha256 = "161s9f24njjx87qrwq0c9nmnwvyc6iblcxka7hirw78lm7i9x4w5";
sha256 = "161s9f24njjx87qrwq0c9nmnwvyc6iblcxka7hirw78lm7i9x4w5"; finalImageName = "quay.io/nextflow/bash";
finalImageName = "quay.io/nextflow/bash"; };
};
hello = pkgs.stdenv.mkDerivation { hello = pkgs.stdenv.mkDerivation {
name = "nextflow-hello"; name = "nextflow-hello";
src = pkgs.fetchFromGitHub { src = pkgs.fetchFromGitHub {
owner = "nextflow-io"; owner = "nextflow-io";
repo = "hello"; repo = "hello";
rev = "afff16a9b45c8e8a4f5a3743780ac13a541762f8"; rev = "afff16a9b45c8e8a4f5a3743780ac13a541762f8";
hash = "sha256-c8FirHc+J5Y439g0BdHxRtXVrOAzIrGEKA0m1mp9b/U="; 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;
}; };
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 = testScript =
{ ... }: { nodes, ... }:
{ ''
environment.systemPackages = [ start_all()
run-nextflow-pipeline machine.wait_for_unit("docker.service")
pkgs.nextflow machine.succeed("docker load < ${bash}")
]; machine.succeed("run-nextflow-pipeline >&2")
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")
'';
}
)