pyrox.dev
1{ pkgs, ... }:
2let
3 bash = pkgs.dockerTools.pullImage {
4 imageName = "quay.io/nextflow/bash";
5 imageDigest = "sha256:bea0e244b7c5367b2b0de687e7d28f692013aa18970941c7dd184450125163ac";
6 sha256 = "161s9f24njjx87qrwq0c9nmnwvyc6iblcxka7hirw78lm7i9x4w5";
7 finalImageName = "quay.io/nextflow/bash";
8 };
9
10 hello = pkgs.stdenv.mkDerivation {
11 name = "nextflow-hello";
12 src = pkgs.fetchFromGitHub {
13 owner = "nextflow-io";
14 repo = "hello";
15 rev = "afff16a9b45c8e8a4f5a3743780ac13a541762f8";
16 hash = "sha256-c8FirHc+J5Y439g0BdHxRtXVrOAzIrGEKA0m1mp9b/U=";
17 };
18 installPhase = ''
19 cp -r $src $out
20 '';
21 };
22 run-nextflow-pipeline = pkgs.writeShellApplication {
23 name = "run-nextflow-pipeline";
24 runtimeInputs = [ pkgs.nextflow ];
25 text = ''
26 export NXF_OFFLINE=true
27 for b in false true; do
28 echo "docker.enabled = $b" > nextflow.config
29 cat nextflow.config
30 nextflow run -ansi-log false ${hello}
31 done
32 '';
33 };
34in
35{
36 name = "nextflow";
37
38 nodes.machine =
39 { ... }:
40 {
41 environment.systemPackages = [
42 run-nextflow-pipeline
43 pkgs.nextflow
44 ];
45 virtualisation = {
46 docker.enable = true;
47 };
48 };
49
50 testScript =
51 { nodes, ... }:
52 ''
53 start_all()
54 machine.wait_for_unit("docker.service")
55 machine.succeed("docker load < ${bash}")
56 machine.succeed("run-nextflow-pipeline >&2")
57 '';
58}