lib/crunchrun/integration_test.go

   1 // Copyright (C) The Arvados Authors. All rights reserved.
   2 //
   3 // SPDX-License-Identifier: AGPL-3.0
   4
   5 package crunchrun
   6
   7 import (
   8         "bytes"
   9         "encoding/json"
  10         "fmt"
  11         "io"
  12         "io/ioutil"
  13         "os"
  14         "os/exec"
  15         "strings"
  16
  17         "git.arvados.org/arvados.git/lib/config"
  18         "git.arvados.org/arvados.git/sdk/go/arvados"
  19         "git.arvados.org/arvados.git/sdk/go/arvadosclient"
  20         "git.arvados.org/arvados.git/sdk/go/arvadostest"
  21         "git.arvados.org/arvados.git/sdk/go/ctxlog"
  22         "git.arvados.org/arvados.git/sdk/go/keepclient"
  23         . "gopkg.in/check.v1"
  24 )
  25
  26 var _ = Suite(&integrationSuite{})
  27
  28 type integrationSuite struct {
  29         engine string
  30         image  arvados.Collection
  31         input  arvados.Collection
  32         stdin  bytes.Buffer
  33         stdout bytes.Buffer
  34         stderr bytes.Buffer
  35         args   []string
  36         cr     arvados.ContainerRequest
  37         client *arvados.Client
  38         ac     *arvadosclient.ArvadosClient
  39         kc     *keepclient.KeepClient
  40
  41         logCollection    arvados.Collection
  42         outputCollection arvados.Collection
  43         logFiles         map[string]string // filename => contents
  44 }
  45
  46 func (s *integrationSuite) SetUpSuite(c *C) {
  47         _, err := exec.LookPath("docker")
  48         if err != nil {
  49                 c.Skip("looks like docker is not installed")
  50         }
  51
  52         arvadostest.StartKeep(2, true)
  53
  54         out, err := exec.Command("docker", "load", "--input", busyboxDockerImage(c)).CombinedOutput()
  55         c.Log(string(out))
  56         c.Assert(err, IsNil)
  57         out, err = exec.Command("arv-keepdocker", "--no-resume", "busybox:uclibc").Output()
  58         imageUUID := strings.TrimSpace(string(out))
  59         c.Logf("image uuid %s", imageUUID)
  60         if !c.Check(err, IsNil) {
  61                 if err, ok := err.(*exec.ExitError); ok {
  62                         c.Logf("%s", err.Stderr)
  63                 }
  64                 c.Fail()
  65         }
  66         err = arvados.NewClientFromEnv().RequestAndDecode(&s.image, "GET", "arvados/v1/collections/"+imageUUID, nil, nil)
  67         c.Assert(err, IsNil)
  68         c.Logf("image pdh %s", s.image.PortableDataHash)
  69
  70         s.client = arvados.NewClientFromEnv()
  71         s.ac, err = arvadosclient.New(s.client)
  72         c.Assert(err, IsNil)
  73         s.kc = keepclient.New(s.ac)
  74         fs, err := s.input.FileSystem(s.client, s.kc)
  75         c.Assert(err, IsNil)
  76         f, err := fs.OpenFile("inputfile", os.O_CREATE|os.O_WRONLY, 0755)
  77         c.Assert(err, IsNil)
  78         _, err = f.Write([]byte("inputdata"))
  79         c.Assert(err, IsNil)
  80         err = f.Close()
  81         c.Assert(err, IsNil)
  82         s.input.ManifestText, err = fs.MarshalManifest(".")
  83         c.Assert(err, IsNil)
  84         err = s.client.RequestAndDecode(&s.input, "POST", "arvados/v1/collections", nil, map[string]interface{}{
  85                 "ensure_unique_name": true,
  86                 "collection": map[string]interface{}{
  87                         "manifest_text": s.input.ManifestText,
  88                 },
  89         })
  90         c.Assert(err, IsNil)
  91         c.Logf("input pdh %s", s.input.PortableDataHash)
  92 }
  93
  94 func (s *integrationSuite) TearDownSuite(c *C) {
  95         os.Unsetenv("ARVADOS_KEEP_SERVICES")
  96         if s.client == nil {
  97                 // didn't set up
  98                 return
  99         }
 100         err := s.client.RequestAndDecode(nil, "POST", "database/reset", nil, nil)
 101         c.Check(err, IsNil)
 102 }
 103
 104 func (s *integrationSuite) SetUpTest(c *C) {
 105         os.Unsetenv("ARVADOS_KEEP_SERVICES")
 106         s.engine = "docker"
 107         s.args = nil
 108         s.stdin = bytes.Buffer{}
 109         s.stdout = bytes.Buffer{}
 110         s.stderr = bytes.Buffer{}
 111         s.logCollection = arvados.Collection{}
 112         s.outputCollection = arvados.Collection{}
 113         s.logFiles = map[string]string{}
 114         s.cr = arvados.ContainerRequest{
 115                 Priority:       1,
 116                 State:          "Committed",
 117                 OutputPath:     "/mnt/out",
 118                 ContainerImage: s.image.PortableDataHash,
 119                 Mounts: map[string]arvados.Mount{
 120                         "/mnt/json": {
 121                                 Kind: "json",
 122                                 Content: []interface{}{
 123                                         "foo",
 124                                         map[string]string{"foo": "bar"},
 125                                         nil,
 126                                 },
 127                         },
 128                         "/mnt/in": {
 129                                 Kind:             "collection",
 130                                 PortableDataHash: s.input.PortableDataHash,
 131                         },
 132                         "/mnt/out": {
 133                                 Kind:     "tmp",
 134                                 Capacity: 1000,
 135                         },
 136                 },
 137                 RuntimeConstraints: arvados.RuntimeConstraints{
 138                         RAM:   128000000,
 139                         VCPUs: 1,
 140                         API:   true,
 141                 },
 142         }
 143 }
 144
 145 func (s *integrationSuite) setup(c *C) {
 146         err := s.client.RequestAndDecode(&s.cr, "POST", "arvados/v1/container_requests", nil, map[string]interface{}{"container_request": map[string]interface{}{
 147                 "priority":            s.cr.Priority,
 148                 "state":               s.cr.State,
 149                 "command":             s.cr.Command,
 150                 "output_path":         s.cr.OutputPath,
 151                 "container_image":     s.cr.ContainerImage,
 152                 "mounts":              s.cr.Mounts,
 153                 "runtime_constraints": s.cr.RuntimeConstraints,
 154                 "use_existing":        false,
 155         }})
 156         c.Assert(err, IsNil)
 157         c.Assert(s.cr.ContainerUUID, Not(Equals), "")
 158         err = s.client.RequestAndDecode(nil, "POST", "arvados/v1/containers/"+s.cr.ContainerUUID+"/lock", nil, nil)
 159         c.Assert(err, IsNil)
 160 }
 161
 162 func (s *integrationSuite) TestRunTrivialContainerWithDocker(c *C) {
 163         s.engine = "docker"
 164         s.testRunTrivialContainer(c)
 165 }
 166
 167 func (s *integrationSuite) TestRunTrivialContainerWithSingularity(c *C) {
 168         s.engine = "singularity"
 169         s.testRunTrivialContainer(c)
 170 }
 171
 172 func (s *integrationSuite) TestRunTrivialContainerWithLocalKeepstore(c *C) {
 173         for _, trial := range []struct {
 174                 logConfig           string
 175                 matchGetReq         Checker
 176                 matchPutReq         Checker
 177                 matchStartupMessage Checker
 178         }{
 179                 {"none", Not(Matches), Not(Matches), Not(Matches)},
 180                 {"all", Matches, Matches, Matches},
 181                 {"errors", Not(Matches), Not(Matches), Matches},
 182         } {
 183                 c.Logf("=== testing with Containers.LocalKeepLogsToContainerLog: %q", trial.logConfig)
 184                 s.SetUpTest(c)
 185
 186                 cfg, err := config.NewLoader(nil, ctxlog.TestLogger(c)).Load()
 187                 c.Assert(err, IsNil)
 188                 cluster, err := cfg.GetCluster("")
 189                 c.Assert(err, IsNil)
 190                 for uuid, volume := range cluster.Volumes {
 191                         volume.AccessViaHosts = nil
 192                         volume.Replication = 2
 193                         cluster.Volumes[uuid] = volume
 194                 }
 195                 cluster.Containers.LocalKeepLogsToContainerLog = trial.logConfig
 196
 197                 s.stdin.Reset()
 198                 err = json.NewEncoder(&s.stdin).Encode(ConfigData{
 199                         Env:         nil,
 200                         KeepBuffers: 1,
 201                         Cluster:     cluster,
 202                 })
 203                 c.Assert(err, IsNil)
 204
 205                 s.engine = "docker"
 206                 s.testRunTrivialContainer(c)
 207
 208                 log, logExists := s.logFiles["keepstore.txt"]
 209                 if trial.logConfig == "none" {
 210                         c.Check(logExists, Equals, false)
 211                 } else {
 212                         c.Check(log, trial.matchGetReq, `(?ms).*"reqMethod":"GET".*`)
 213                         c.Check(log, trial.matchPutReq, `(?ms).*"reqMethod":"PUT".*,"reqPath":"0e3bcff26d51c895a60ea0d4585e134d".*`)
 214                 }
 215         }
 216
 217         // Check that (1) config is loaded from $ARVADOS_CONFIG when
 218         // not provided on stdin and (2) if a local keepstore is not
 219         // started, crunch-run.txt explains why not.
 220         s.SetUpTest(c)
 221         s.stdin.Reset()
 222         s.testRunTrivialContainer(c)
 223         c.Check(s.logFiles["crunch-run.txt"], Matches, `(?ms).*not starting a local keepstore process because a volume \(zzzzz-nyw5e-000000000000000\) uses AccessViaHosts\n.*`)
 224
 225         // Check that config read errors are logged
 226         s.SetUpTest(c)
 227         s.args = []string{"-config", c.MkDir() + "/config-error.yaml"}
 228         s.stdin.Reset()
 229         s.testRunTrivialContainer(c)
 230         c.Check(s.logFiles["crunch-run.txt"], Matches, `(?ms).*could not load config file \Q`+s.args[1]+`\E:.* no such file or directory\n.*`)
 231
 232         s.SetUpTest(c)
 233         s.args = []string{"-config", c.MkDir() + "/config-unreadable.yaml"}
 234         s.stdin.Reset()
 235         err := ioutil.WriteFile(s.args[1], []byte{}, 0)
 236         c.Check(err, IsNil)
 237         s.testRunTrivialContainer(c)
 238         c.Check(s.logFiles["crunch-run.txt"], Matches, `(?ms).*could not load config file \Q`+s.args[1]+`\E:.* permission denied\n.*`)
 239
 240         s.SetUpTest(c)
 241         s.stdin.Reset()
 242         s.testRunTrivialContainer(c)
 243         c.Check(s.logFiles["crunch-run.txt"], Matches, `(?ms).*loaded config file \Q`+os.Getenv("ARVADOS_CONFIG")+`\E\n.*`)
 244 }
 245
 246 func (s *integrationSuite) testRunTrivialContainer(c *C) {
 247         if err := exec.Command("which", s.engine).Run(); err != nil {
 248                 c.Skip(fmt.Sprintf("%s: %s", s.engine, err))
 249         }
 250         s.cr.Command = []string{"sh", "-c", "cat /mnt/in/inputfile >/mnt/out/inputfile && cat /mnt/json >/mnt/out/json && ! touch /mnt/in/shouldbereadonly && mkdir /mnt/out/emptydir"}
 251         s.setup(c)
 252
 253         args := []string{
 254                 "-runtime-engine=" + s.engine,
 255                 "-enable-memory-limit=false",
 256         }
 257         if s.stdin.Len() > 0 {
 258                 args = append(args, "-stdin-config=true")
 259         }
 260         args = append(args, s.args...)
 261         args = append(args, s.cr.ContainerUUID)
 262         code := command{}.RunCommand("crunch-run", args, &s.stdin, io.MultiWriter(&s.stdout, os.Stderr), io.MultiWriter(&s.stderr, os.Stderr))
 263         c.Logf("\n===== stdout =====\n%s", s.stdout.String())
 264         c.Logf("\n===== stderr =====\n%s", s.stderr.String())
 265         c.Check(code, Equals, 0)
 266         err := s.client.RequestAndDecode(&s.cr, "GET", "arvados/v1/container_requests/"+s.cr.UUID, nil, nil)
 267         c.Assert(err, IsNil)
 268         c.Logf("Finished container request: %#v", s.cr)
 269
 270         var log arvados.Collection
 271         err = s.client.RequestAndDecode(&log, "GET", "arvados/v1/collections/"+s.cr.LogUUID, nil, nil)
 272         c.Assert(err, IsNil)
 273         fs, err := log.FileSystem(s.client, s.kc)
 274         c.Assert(err, IsNil)
 275         if d, err := fs.Open("/"); c.Check(err, IsNil) {
 276                 fis, err := d.Readdir(-1)
 277                 c.Assert(err, IsNil)
 278                 for _, fi := range fis {
 279                         if fi.IsDir() {
 280                                 continue
 281                         }
 282                         f, err := fs.Open(fi.Name())
 283                         c.Assert(err, IsNil)
 284                         buf, err := ioutil.ReadAll(f)
 285                         c.Assert(err, IsNil)
 286                         c.Logf("\n===== %s =====\n%s", fi.Name(), buf)
 287                         s.logFiles[fi.Name()] = string(buf)
 288                 }
 289         }
 290         s.logCollection = log
 291
 292         var output arvados.Collection
 293         err = s.client.RequestAndDecode(&output, "GET", "arvados/v1/collections/"+s.cr.OutputUUID, nil, nil)
 294         c.Assert(err, IsNil)
 295         fs, err = output.FileSystem(s.client, s.kc)
 296         c.Assert(err, IsNil)
 297         if f, err := fs.Open("inputfile"); c.Check(err, IsNil) {
 298                 defer f.Close()
 299                 buf, err := ioutil.ReadAll(f)
 300                 c.Check(err, IsNil)
 301                 c.Check(string(buf), Equals, "inputdata")
 302         }
 303         if f, err := fs.Open("json"); c.Check(err, IsNil) {
 304                 defer f.Close()
 305                 buf, err := ioutil.ReadAll(f)
 306                 c.Check(err, IsNil)
 307                 c.Check(string(buf), Equals, `["foo",{"foo":"bar"},null]`)
 308         }
 309         if fi, err := fs.Stat("emptydir"); c.Check(err, IsNil) {
 310                 c.Check(fi.IsDir(), Equals, true)
 311         }
 312         if d, err := fs.Open("emptydir"); c.Check(err, IsNil) {
 313                 defer d.Close()
 314                 fis, err := d.Readdir(-1)
 315                 c.Assert(err, IsNil)
 316                 // crunch-run still saves a ".keep" file to preserve
 317                 // empty dirs even though that shouldn't be
 318                 // necessary. Ideally we would do:
 319                 // c.Check(fis, HasLen, 0)
 320                 for _, fi := range fis {
 321                         c.Check(fi.Name(), Equals, ".keep")
 322                 }
 323         }
 324         s.outputCollection = output
 325 }