// Copyright (C) The Arvados Authors. All rights reserved.
//
// SPDX-License-Identifier: AGPL-3.0
package crunchrun
import (
"bytes"
"crypto/md5"
"encoding/json"
"errors"
"fmt"
"io"
"io/ioutil"
"os"
"os/exec"
"regexp"
"runtime/pprof"
"strings"
"sync"
"syscall"
"testing"
"time"
"git.arvados.org/arvados.git/lib/cmd"
"git.arvados.org/arvados.git/sdk/go/arvados"
"git.arvados.org/arvados.git/sdk/go/arvadosclient"
"git.arvados.org/arvados.git/sdk/go/arvadostest"
"git.arvados.org/arvados.git/sdk/go/manifest"
"golang.org/x/net/context"
. "gopkg.in/check.v1"
)
// Gocheck boilerplate
func TestCrunchExec(t *testing.T) {
TestingT(t)
}
var _ = Suite(&TestSuite{})
type TestSuite struct {
client *arvados.Client
api *ArvTestClient
runner *ContainerRunner
executor *stubExecutor
keepmount string
keepmountTmp []string
testDispatcherKeepClient KeepTestClient
testContainerKeepClient KeepTestClient
}
func (s *TestSuite) SetUpTest(c *C) {
s.client = arvados.NewClientFromEnv()
s.executor = &stubExecutor{}
var err error
s.api = &ArvTestClient{}
s.runner, err = NewContainerRunner(s.client, s.api, &s.testDispatcherKeepClient, "zzzzz-zzzzz-zzzzzzzzzzzzzzz")
c.Assert(err, IsNil)
s.runner.executor = s.executor
s.runner.MkArvClient = func(token string) (IArvadosClient, IKeepClient, *arvados.Client, error) {
return s.api, &s.testContainerKeepClient, s.client, nil
}
s.runner.RunArvMount = func(cmd []string, tok string) (*exec.Cmd, error) {
s.runner.ArvMountPoint = s.keepmount
for i, opt := range cmd {
if opt == "--mount-tmp" {
err := os.Mkdir(s.keepmount+"/"+cmd[i+1], 0700)
if err != nil {
return nil, err
}
s.keepmountTmp = append(s.keepmountTmp, cmd[i+1])
}
}
return nil, nil
}
s.keepmount = c.MkDir()
err = os.Mkdir(s.keepmount+"/by_id", 0755)
s.keepmountTmp = nil
c.Assert(err, IsNil)
err = os.Mkdir(s.keepmount+"/by_id/"+arvadostest.DockerImage112PDH, 0755)
c.Assert(err, IsNil)
err = ioutil.WriteFile(s.keepmount+"/by_id/"+arvadostest.DockerImage112PDH+"/"+arvadostest.DockerImage112Filename, []byte("#notarealtarball"), 0644)
err = os.Mkdir(s.keepmount+"/by_id/"+fakeInputCollectionPDH, 0755)
c.Assert(err, IsNil)
err = ioutil.WriteFile(s.keepmount+"/by_id/"+fakeInputCollectionPDH+"/input.json", []byte(`{"input":true}`), 0644)
c.Assert(err, IsNil)
s.runner.ArvMountPoint = s.keepmount
}
type ArvTestClient struct {
Total int64
Calls int
Content []arvadosclient.Dict
arvados.Container
secretMounts []byte
Logs map[string]*bytes.Buffer
sync.Mutex
WasSetRunning bool
callraw bool
}
type KeepTestClient struct {
Called bool
Content []byte
StorageClasses []string
}
type stubExecutor struct {
imageLoaded bool
loaded string
loadErr error
exitCode int
createErr error
created containerSpec
startErr error
waitSleep time.Duration
waitErr error
stopErr error
stopped bool
closed bool
runFunc func()
exit chan int
}
func (e *stubExecutor) LoadImage(imageId string, tarball string, container arvados.Container, keepMount string,
containerClient *arvados.Client) error {
e.loaded = tarball
return e.loadErr
}
func (e *stubExecutor) Runtime() string { return "stub" }
func (e *stubExecutor) Version() string { return "stub " + cmd.Version.String() }
func (e *stubExecutor) Create(spec containerSpec) error { e.created = spec; return e.createErr }
func (e *stubExecutor) Start() error { e.exit = make(chan int, 1); go e.runFunc(); return e.startErr }
func (e *stubExecutor) CgroupID() string { return "cgroupid" }
func (e *stubExecutor) Stop() error { e.stopped = true; go func() { e.exit <- -1 }(); return e.stopErr }
func (e *stubExecutor) Close() { e.closed = true }
func (e *stubExecutor) Wait(context.Context) (int, error) {
return <-e.exit, e.waitErr
}
func (e *stubExecutor) InjectCommand(ctx context.Context, _, _ string, _ bool, _ []string) (*exec.Cmd, error) {
return nil, errors.New("unimplemented")
}
func (e *stubExecutor) IPAddress() (string, error) { return "", errors.New("unimplemented") }
const fakeInputCollectionPDH = "ffffffffaaaaaaaa88888888eeeeeeee+1234"
var hwManifest = ". 82ab40c24fc8df01798e57ba66795bb1+841216+Aa124ac75e5168396c73c0a18eda641a4f41791c0@569fa8c3 0:841216:9c31ee32b3d15268a0754e8edc74d4f815ee014b693bc5109058e431dd5caea7.tar\n"
var hwPDH = "a45557269dcb65a6b78f9ac061c0850b+120"
var hwImageID = "9c31ee32b3d15268a0754e8edc74d4f815ee014b693bc5109058e431dd5caea7"
var otherManifest = ". 68a84f561b1d1708c6baff5e019a9ab3+46+Ae5d0af96944a3690becb1decdf60cc1c937f556d@5693216f 0:46:md5sum.txt\n"
var otherPDH = "a3e8f74c6f101eae01fa08bfb4e49b3a+54"
var normalizedManifestWithSubdirs = `. 3e426d509afffb85e06c4c96a7c15e91+27+Aa124ac75e5168396c73c0abcdefgh11234567890@569fa8c3 0:9:file1_in_main.txt 9:18:file2_in_main.txt 0:27:zzzzz-8i9sb-bcdefghijkdhvnk.log.txt
./subdir1 3e426d509afffb85e06c4c96a7c15e91+27+Aa124ac75e5168396cabcdefghij6419876543234@569fa8c4 0:9:file1_in_subdir1.txt 9:18:file2_in_subdir1.txt
./subdir1/subdir2 3e426d509afffb85e06c4c96a7c15e91+27+Aa124ac75e5168396c73c0bcdefghijk544332211@569fa8c5 0:9:file1_in_subdir2.txt 9:18:file2_in_subdir2.txt
`
var normalizedWithSubdirsPDH = "a0def87f80dd594d4675809e83bd4f15+367"
var denormalizedManifestWithSubdirs = ". 3e426d509afffb85e06c4c96a7c15e91+27+Aa124ac75e5168396c73c0abcdefgh11234567890@569fa8c3 0:9:file1_in_main.txt 9:18:file2_in_main.txt 0:27:zzzzz-8i9sb-bcdefghijkdhvnk.log.txt 0:10:subdir1/file1_in_subdir1.txt 10:17:subdir1/file2_in_subdir1.txt\n"
var denormalizedWithSubdirsPDH = "b0def87f80dd594d4675809e83bd4f15+367"
var fakeAuthUUID = "zzzzz-gj3su-55pqoyepgi2glem"
var fakeAuthToken = "a3ltuwzqcu2u4sc0q7yhpc2w7s00fdcqecg5d6e0u3pfohmbjt"
func (client *ArvTestClient) Create(resourceType string,
parameters arvadosclient.Dict,
output interface{}) error {
client.Mutex.Lock()
defer client.Mutex.Unlock()
client.Calls++
client.Content = append(client.Content, parameters)
if resourceType == "logs" {
et := parameters["log"].(arvadosclient.Dict)["event_type"].(string)
if client.Logs == nil {
client.Logs = make(map[string]*bytes.Buffer)
}
if client.Logs[et] == nil {
client.Logs[et] = &bytes.Buffer{}
}
client.Logs[et].Write([]byte(parameters["log"].(arvadosclient.Dict)["properties"].(map[string]string)["text"]))
}
if resourceType == "collections" && output != nil {
mt := parameters["collection"].(arvadosclient.Dict)["manifest_text"].(string)
outmap := output.(*arvados.Collection)
outmap.PortableDataHash = fmt.Sprintf("%x+%d", md5.Sum([]byte(mt)), len(mt))
outmap.UUID = fmt.Sprintf("zzzzz-4zz18-%15.15x", md5.Sum([]byte(mt)))
}
return nil
}
func (client *ArvTestClient) Call(method, resourceType, uuid, action string, parameters arvadosclient.Dict, output interface{}) error {
switch {
case method == "GET" && resourceType == "containers" && action == "auth":
return json.Unmarshal([]byte(`{
"kind": "arvados#api_client_authorization",
"uuid": "`+fakeAuthUUID+`",
"api_token": "`+fakeAuthToken+`"
}`), output)
case method == "GET" && resourceType == "containers" && action == "secret_mounts":
if client.secretMounts != nil {
return json.Unmarshal(client.secretMounts, output)
}
return json.Unmarshal([]byte(`{"secret_mounts":{}}`), output)
default:
return fmt.Errorf("Not found")
}
}
func (client *ArvTestClient) CallRaw(method, resourceType, uuid, action string,
parameters arvadosclient.Dict) (reader io.ReadCloser, err error) {
var j []byte
if method == "GET" && resourceType == "nodes" && uuid == "" && action == "" {
j = []byte(`{
"kind": "arvados#nodeList",
"items": [{
"uuid": "zzzzz-7ekkf-2z3mc76g2q73aio",
"hostname": "compute2",
"properties": {"total_cpu_cores": 16}
}]}`)
} else if method == "GET" && resourceType == "containers" && action == "" && !client.callraw {
if uuid == "" {
j, err = json.Marshal(map[string]interface{}{
"items": []interface{}{client.Container},
"kind": "arvados#nodeList",
})
} else {
j, err = json.Marshal(client.Container)
}
} else {
j = []byte(`{
"command": ["sleep", "1"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"}, "/json": {"kind": "json", "content": {"number": 123456789123456789}}},
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {}
}`)
}
return ioutil.NopCloser(bytes.NewReader(j)), err
}
func (client *ArvTestClient) Get(resourceType string, uuid string, parameters arvadosclient.Dict, output interface{}) error {
if resourceType == "collections" {
if uuid == hwPDH {
output.(*arvados.Collection).ManifestText = hwManifest
} else if uuid == otherPDH {
output.(*arvados.Collection).ManifestText = otherManifest
} else if uuid == normalizedWithSubdirsPDH {
output.(*arvados.Collection).ManifestText = normalizedManifestWithSubdirs
} else if uuid == denormalizedWithSubdirsPDH {
output.(*arvados.Collection).ManifestText = denormalizedManifestWithSubdirs
}
}
if resourceType == "containers" {
(*output.(*arvados.Container)) = client.Container
}
return nil
}
func (client *ArvTestClient) Update(resourceType string, uuid string, parameters arvadosclient.Dict, output interface{}) (err error) {
client.Mutex.Lock()
defer client.Mutex.Unlock()
client.Calls++
client.Content = append(client.Content, parameters)
if resourceType == "containers" {
if parameters["container"].(arvadosclient.Dict)["state"] == "Running" {
client.WasSetRunning = true
}
} else if resourceType == "collections" && output != nil {
mt := parameters["collection"].(arvadosclient.Dict)["manifest_text"].(string)
output.(*arvados.Collection).UUID = uuid
output.(*arvados.Collection).PortableDataHash = fmt.Sprintf("%x", md5.Sum([]byte(mt)))
}
return nil
}
var discoveryMap = map[string]interface{}{
"defaultTrashLifetime": float64(1209600),
"crunchLimitLogBytesPerJob": float64(67108864),
"crunchLogThrottleBytes": float64(65536),
"crunchLogThrottlePeriod": float64(60),
"crunchLogThrottleLines": float64(1024),
"crunchLogPartialLineThrottlePeriod": float64(5),
"crunchLogBytesPerEvent": float64(4096),
"crunchLogSecondsBetweenEvents": float64(1),
}
func (client *ArvTestClient) Discovery(key string) (interface{}, error) {
return discoveryMap[key], nil
}
// CalledWith returns the parameters from the first API call whose
// parameters match jpath/string. E.g., CalledWith(c, "foo.bar",
// "baz") returns parameters with parameters["foo"]["bar"]=="baz". If
// no call matches, it returns nil.
func (client *ArvTestClient) CalledWith(jpath string, expect interface{}) arvadosclient.Dict {
call:
for _, content := range client.Content {
var v interface{} = content
for _, k := range strings.Split(jpath, ".") {
if dict, ok := v.(arvadosclient.Dict); !ok {
continue call
} else {
v = dict[k]
}
}
if v == expect {
return content
}
}
return nil
}
func (client *KeepTestClient) LocalLocator(locator string) (string, error) {
return locator, nil
}
func (client *KeepTestClient) BlockWrite(_ context.Context, opts arvados.BlockWriteOptions) (arvados.BlockWriteResponse, error) {
client.Content = opts.Data
return arvados.BlockWriteResponse{
Locator: fmt.Sprintf("%x+%d", md5.Sum(opts.Data), len(opts.Data)),
}, nil
}
func (client *KeepTestClient) ReadAt(string, []byte, int) (int, error) {
return 0, errors.New("not implemented")
}
func (client *KeepTestClient) ClearBlockCache() {
}
func (client *KeepTestClient) Close() {
client.Content = nil
}
func (client *KeepTestClient) SetStorageClasses(sc []string) {
client.StorageClasses = sc
}
type FileWrapper struct {
io.ReadCloser
len int64
}
func (fw FileWrapper) Readdir(n int) ([]os.FileInfo, error) {
return nil, errors.New("not implemented")
}
func (fw FileWrapper) Seek(int64, int) (int64, error) {
return 0, errors.New("not implemented")
}
func (fw FileWrapper) Size() int64 {
return fw.len
}
func (fw FileWrapper) Stat() (os.FileInfo, error) {
return nil, errors.New("not implemented")
}
func (fw FileWrapper) Truncate(int64) error {
return errors.New("not implemented")
}
func (fw FileWrapper) Write([]byte) (int, error) {
return 0, errors.New("not implemented")
}
func (fw FileWrapper) Sync() error {
return errors.New("not implemented")
}
func (fw FileWrapper) Snapshot() (*arvados.Subtree, error) {
return nil, errors.New("not implemented")
}
func (fw FileWrapper) Splice(*arvados.Subtree) error {
return errors.New("not implemented")
}
func (client *KeepTestClient) ManifestFileReader(m manifest.Manifest, filename string) (arvados.File, error) {
if filename == hwImageID+".tar" {
rdr := ioutil.NopCloser(&bytes.Buffer{})
client.Called = true
return FileWrapper{rdr, 1321984}, nil
} else if filename == "/file1_in_main.txt" {
rdr := ioutil.NopCloser(strings.NewReader("foo"))
client.Called = true
return FileWrapper{rdr, 3}, nil
}
return nil, nil
}
func (s *TestSuite) TestLoadImage(c *C) {
s.runner.Container.ContainerImage = arvadostest.DockerImage112PDH
s.runner.Container.Mounts = map[string]arvados.Mount{
"/out": {Kind: "tmp", Writable: true},
}
s.runner.Container.OutputPath = "/out"
_, err := s.runner.SetupMounts()
c.Assert(err, IsNil)
imageID, err := s.runner.LoadImage()
c.Check(err, IsNil)
c.Check(s.executor.loaded, Matches, ".*"+regexp.QuoteMeta(arvadostest.DockerImage112Filename))
c.Check(imageID, Equals, strings.TrimSuffix(arvadostest.DockerImage112Filename, ".tar"))
s.runner.Container.ContainerImage = arvadostest.DockerImage112PDH
s.executor.imageLoaded = false
s.executor.loaded = ""
s.executor.loadErr = errors.New("bork")
imageID, err = s.runner.LoadImage()
c.Check(err, ErrorMatches, ".*bork")
c.Check(s.executor.loaded, Matches, ".*"+regexp.QuoteMeta(arvadostest.DockerImage112Filename))
s.runner.Container.ContainerImage = fakeInputCollectionPDH
s.executor.imageLoaded = false
s.executor.loaded = ""
s.executor.loadErr = nil
imageID, err = s.runner.LoadImage()
c.Check(err, ErrorMatches, "image collection does not include a \\.tar image file")
c.Check(s.executor.loaded, Equals, "")
}
type ArvErrorTestClient struct{}
func (ArvErrorTestClient) Create(resourceType string,
parameters arvadosclient.Dict,
output interface{}) error {
return nil
}
func (ArvErrorTestClient) Call(method, resourceType, uuid, action string, parameters arvadosclient.Dict, output interface{}) error {
if method == "GET" && resourceType == "containers" && action == "auth" {
return nil
}
return errors.New("ArvError")
}
func (ArvErrorTestClient) CallRaw(method, resourceType, uuid, action string,
parameters arvadosclient.Dict) (reader io.ReadCloser, err error) {
return nil, errors.New("ArvError")
}
func (ArvErrorTestClient) Get(resourceType string, uuid string, parameters arvadosclient.Dict, output interface{}) error {
return errors.New("ArvError")
}
func (ArvErrorTestClient) Update(resourceType string, uuid string, parameters arvadosclient.Dict, output interface{}) (err error) {
return nil
}
func (ArvErrorTestClient) Discovery(key string) (interface{}, error) {
return discoveryMap[key], nil
}
type KeepErrorTestClient struct {
KeepTestClient
}
func (*KeepErrorTestClient) ManifestFileReader(manifest.Manifest, string) (arvados.File, error) {
return nil, errors.New("KeepError")
}
func (*KeepErrorTestClient) BlockWrite(context.Context, arvados.BlockWriteOptions) (arvados.BlockWriteResponse, error) {
return arvados.BlockWriteResponse{}, errors.New("KeepError")
}
func (*KeepErrorTestClient) LocalLocator(string) (string, error) {
return "", errors.New("KeepError")
}
type KeepReadErrorTestClient struct {
KeepTestClient
}
func (*KeepReadErrorTestClient) ReadAt(string, []byte, int) (int, error) {
return 0, errors.New("KeepError")
}
type ErrorReader struct {
FileWrapper
}
func (ErrorReader) Read(p []byte) (n int, err error) {
return 0, errors.New("ErrorReader")
}
func (ErrorReader) Seek(int64, int) (int64, error) {
return 0, errors.New("ErrorReader")
}
func (KeepReadErrorTestClient) ManifestFileReader(m manifest.Manifest, filename string) (arvados.File, error) {
return ErrorReader{}, nil
}
type ClosableBuffer struct {
bytes.Buffer
}
func (*ClosableBuffer) Close() error {
return nil
}
type TestLogs struct {
Stdout ClosableBuffer
Stderr ClosableBuffer
}
func (tl *TestLogs) NewTestLoggingWriter(logstr string) (io.WriteCloser, error) {
if logstr == "stdout" {
return &tl.Stdout, nil
}
if logstr == "stderr" {
return &tl.Stderr, nil
}
return nil, errors.New("???")
}
func dockerLog(fd byte, msg string) []byte {
by := []byte(msg)
header := make([]byte, 8+len(by))
header[0] = fd
header[7] = byte(len(by))
copy(header[8:], by)
return header
}
func (s *TestSuite) TestRunContainer(c *C) {
s.executor.runFunc = func() {
fmt.Fprintf(s.executor.created.Stdout, "Hello world\n")
s.executor.exit <- 0
}
var logs TestLogs
s.runner.NewLogWriter = logs.NewTestLoggingWriter
s.runner.Container.ContainerImage = arvadostest.DockerImage112PDH
s.runner.Container.Command = []string{"./hw"}
s.runner.Container.OutputStorageClasses = []string{"default"}
imageID, err := s.runner.LoadImage()
c.Assert(err, IsNil)
err = s.runner.CreateContainer(imageID, nil)
c.Assert(err, IsNil)
err = s.runner.StartContainer()
c.Assert(err, IsNil)
err = s.runner.WaitFinish()
c.Assert(err, IsNil)
c.Check(logs.Stdout.String(), Matches, ".*Hello world\n")
c.Check(logs.Stderr.String(), Equals, "")
}
func (s *TestSuite) TestCommitLogs(c *C) {
api := &ArvTestClient{}
kc := &KeepTestClient{}
defer kc.Close()
cr, err := NewContainerRunner(s.client, api, kc, "zzzzz-zzzzz-zzzzzzzzzzzzzzz")
c.Assert(err, IsNil)
cr.CrunchLog.Timestamper = (&TestTimestamper{}).Timestamp
cr.CrunchLog.Print("Hello world!")
cr.CrunchLog.Print("Goodbye")
cr.finalState = "Complete"
err = cr.CommitLogs()
c.Check(err, IsNil)
c.Check(api.Calls, Equals, 2)
c.Check(api.Content[1]["ensure_unique_name"], Equals, true)
c.Check(api.Content[1]["collection"].(arvadosclient.Dict)["name"], Equals, "logs for zzzzz-zzzzz-zzzzzzzzzzzzzzz")
c.Check(api.Content[1]["collection"].(arvadosclient.Dict)["manifest_text"], Equals, ". 744b2e4553123b02fa7b452ec5c18993+123 0:123:crunch-run.txt\n")
c.Check(*cr.LogsPDH, Equals, "63da7bdacf08c40f604daad80c261e9a+60")
}
func (s *TestSuite) TestUpdateContainerRunning(c *C) {
api := &ArvTestClient{}
kc := &KeepTestClient{}
defer kc.Close()
cr, err := NewContainerRunner(s.client, api, kc, "zzzzz-zzzzz-zzzzzzzzzzzzzzz")
c.Assert(err, IsNil)
err = cr.UpdateContainerRunning()
c.Check(err, IsNil)
c.Check(api.Content[0]["container"].(arvadosclient.Dict)["state"], Equals, "Running")
}
func (s *TestSuite) TestUpdateContainerComplete(c *C) {
api := &ArvTestClient{}
kc := &KeepTestClient{}
defer kc.Close()
cr, err := NewContainerRunner(s.client, api, kc, "zzzzz-zzzzz-zzzzzzzzzzzzzzz")
c.Assert(err, IsNil)
cr.LogsPDH = new(string)
*cr.LogsPDH = "d3a229d2fe3690c2c3e75a71a153c6a3+60"
cr.ExitCode = new(int)
*cr.ExitCode = 42
cr.finalState = "Complete"
err = cr.UpdateContainerFinal()
c.Check(err, IsNil)
c.Check(api.Content[0]["container"].(arvadosclient.Dict)["log"], Equals, *cr.LogsPDH)
c.Check(api.Content[0]["container"].(arvadosclient.Dict)["exit_code"], Equals, *cr.ExitCode)
c.Check(api.Content[0]["container"].(arvadosclient.Dict)["state"], Equals, "Complete")
}
func (s *TestSuite) TestUpdateContainerCancelled(c *C) {
api := &ArvTestClient{}
kc := &KeepTestClient{}
defer kc.Close()
cr, err := NewContainerRunner(s.client, api, kc, "zzzzz-zzzzz-zzzzzzzzzzzzzzz")
c.Assert(err, IsNil)
cr.cCancelled = true
cr.finalState = "Cancelled"
err = cr.UpdateContainerFinal()
c.Check(err, IsNil)
c.Check(api.Content[0]["container"].(arvadosclient.Dict)["log"], IsNil)
c.Check(api.Content[0]["container"].(arvadosclient.Dict)["exit_code"], IsNil)
c.Check(api.Content[0]["container"].(arvadosclient.Dict)["state"], Equals, "Cancelled")
}
// Used by the TestFullRun*() test below to DRY up boilerplate setup to do full
// dress rehearsal of the Run() function, starting from a JSON container record.
func (s *TestSuite) fullRunHelper(c *C, record string, extraMounts []string, exitCode int, fn func()) (*ArvTestClient, *ContainerRunner, string) {
err := json.Unmarshal([]byte(record), &s.api.Container)
c.Assert(err, IsNil)
initialState := s.api.Container.State
var sm struct {
SecretMounts map[string]arvados.Mount `json:"secret_mounts"`
}
err = json.Unmarshal([]byte(record), &sm)
c.Check(err, IsNil)
secretMounts, err := json.Marshal(sm)
c.Assert(err, IsNil)
c.Logf("SecretMounts decoded %v json %q", sm, secretMounts)
s.executor.runFunc = func() {
fn()
s.executor.exit <- exitCode
}
s.runner.statInterval = 100 * time.Millisecond
s.runner.containerWatchdogInterval = time.Second
realTemp := c.MkDir()
tempcount := 0
s.runner.MkTempDir = func(_, prefix string) (string, error) {
tempcount++
d := fmt.Sprintf("%s/%s%d", realTemp, prefix, tempcount)
err := os.Mkdir(d, os.ModePerm)
if err != nil && strings.Contains(err.Error(), ": file exists") {
// Test case must have pre-populated the tempdir
err = nil
}
return d, err
}
s.runner.MkArvClient = func(token string) (IArvadosClient, IKeepClient, *arvados.Client, error) {
return &ArvTestClient{secretMounts: secretMounts}, &s.testContainerKeepClient, nil, nil
}
if extraMounts != nil && len(extraMounts) > 0 {
err := s.runner.SetupArvMountPoint("keep")
c.Check(err, IsNil)
for _, m := range extraMounts {
os.MkdirAll(s.runner.ArvMountPoint+"/by_id/"+m, os.ModePerm)
}
}
err = s.runner.Run()
if s.api.CalledWith("container.state", "Complete") != nil {
c.Check(err, IsNil)
}
if s.executor.loadErr == nil && s.executor.createErr == nil && initialState != "Running" {
c.Check(s.api.WasSetRunning, Equals, true)
var lastupdate arvadosclient.Dict
for _, content := range s.api.Content {
if content["container"] != nil {
lastupdate = content["container"].(arvadosclient.Dict)
}
}
if lastupdate["log"] == nil {
c.Errorf("no container update with non-nil log -- updates were: %v", s.api.Content)
}
}
if err != nil {
for k, v := range s.api.Logs {
c.Log(k)
c.Log(v.String())
}
}
return s.api, s.runner, realTemp
}
func (s *TestSuite) TestFullRunHello(c *C) {
s.runner.enableMemoryLimit = true
s.runner.networkMode = "default"
s.fullRunHelper(c, `{
"command": ["echo", "hello world"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"environment": {"foo":"bar","baz":"waz"},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {"vcpus":1,"ram":1000000},
"state": "Locked",
"output_storage_classes": ["default"]
}`, nil, 0, func() {
c.Check(s.executor.created.Command, DeepEquals, []string{"echo", "hello world"})
c.Check(s.executor.created.Image, Equals, "sha256:d8309758b8fe2c81034ffc8a10c36460b77db7bc5e7b448c4e5b684f9d95a678")
c.Check(s.executor.created.Env, DeepEquals, map[string]string{"foo": "bar", "baz": "waz"})
c.Check(s.executor.created.VCPUs, Equals, 1)
c.Check(s.executor.created.RAM, Equals, int64(1000000))
c.Check(s.executor.created.NetworkMode, Equals, "default")
c.Check(s.executor.created.EnableNetwork, Equals, false)
c.Check(s.executor.created.CUDADeviceCount, Equals, 0)
fmt.Fprintln(s.executor.created.Stdout, "hello world")
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Check(s.api.Logs["stdout"].String(), Matches, ".*hello world\n")
c.Check(s.testDispatcherKeepClient.StorageClasses, DeepEquals, []string{"default"})
c.Check(s.testContainerKeepClient.StorageClasses, DeepEquals, []string{"default"})
}
func (s *TestSuite) TestRunAlreadyRunning(c *C) {
var ran bool
s.fullRunHelper(c, `{
"command": ["sleep", "3"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"scheduling_parameters":{"max_run_time": 1},
"state": "Running"
}`, nil, 2, func() {
ran = true
})
c.Check(s.api.CalledWith("container.state", "Cancelled"), IsNil)
c.Check(s.api.CalledWith("container.state", "Complete"), IsNil)
c.Check(ran, Equals, false)
}
func (s *TestSuite) TestRunTimeExceeded(c *C) {
s.fullRunHelper(c, `{
"command": ["sleep", "3"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"scheduling_parameters":{"max_run_time": 1},
"state": "Locked"
}`, nil, 0, func() {
time.Sleep(3 * time.Second)
})
c.Check(s.api.CalledWith("container.state", "Cancelled"), NotNil)
c.Check(s.api.Logs["crunch-run"].String(), Matches, "(?ms).*maximum run time exceeded.*")
}
func (s *TestSuite) TestContainerWaitFails(c *C) {
s.fullRunHelper(c, `{
"command": ["sleep", "3"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"state": "Locked"
}`, nil, 0, func() {
s.executor.waitErr = errors.New("Container is not running")
})
c.Check(s.api.CalledWith("container.state", "Cancelled"), NotNil)
c.Check(s.api.Logs["crunch-run"].String(), Matches, "(?ms).*Container is not running.*")
}
func (s *TestSuite) TestCrunchstat(c *C) {
s.fullRunHelper(c, `{
"command": ["sleep", "1"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`, nil, 0, func() {
time.Sleep(time.Second)
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
// We didn't actually start a container, so crunchstat didn't
// find accounting files and therefore didn't log any stats.
// It should have logged a "can't find accounting files"
// message after one poll interval, though, so we can confirm
// it's alive:
c.Assert(s.api.Logs["crunchstat"], NotNil)
c.Check(s.api.Logs["crunchstat"].String(), Matches, `(?ms).*cgroup stats files have not appeared after 100ms.*`)
// The "files never appeared" log assures us that we called
// (*crunchstat.Reporter)Stop(), and that we set it up with
// the correct container ID "abcde":
c.Check(s.api.Logs["crunchstat"].String(), Matches, `(?ms).*cgroup stats files never appeared for cgroupid\n`)
}
func (s *TestSuite) TestNodeInfoLog(c *C) {
os.Setenv("SLURMD_NODENAME", "compute2")
s.fullRunHelper(c, `{
"command": ["sleep", "1"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`, nil, 0,
func() {
time.Sleep(time.Second)
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Assert(s.api.Logs["node"], NotNil)
json := s.api.Logs["node"].String()
c.Check(json, Matches, `(?ms).*"uuid": *"zzzzz-7ekkf-2z3mc76g2q73aio".*`)
c.Check(json, Matches, `(?ms).*"total_cpu_cores": *16.*`)
c.Check(json, Not(Matches), `(?ms).*"info":.*`)
c.Assert(s.api.Logs["node-info"], NotNil)
json = s.api.Logs["node-info"].String()
c.Check(json, Matches, `(?ms).*Host Information.*`)
c.Check(json, Matches, `(?ms).*CPU Information.*`)
c.Check(json, Matches, `(?ms).*Memory Information.*`)
c.Check(json, Matches, `(?ms).*Disk Space.*`)
c.Check(json, Matches, `(?ms).*Disk INodes.*`)
}
func (s *TestSuite) TestLogVersionAndRuntime(c *C) {
s.fullRunHelper(c, `{
"command": ["sleep", "1"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`, nil, 0,
func() {
})
c.Assert(s.api.Logs["crunch-run"], NotNil)
c.Check(s.api.Logs["crunch-run"].String(), Matches, `(?ms).*crunch-run \S+ \(go\S+\) start.*`)
c.Check(s.api.Logs["crunch-run"].String(), Matches, `(?ms).*crunch-run process has uid=\d+\(.+\) gid=\d+\(.+\) groups=\d+\(.+\)(,\d+\(.+\))*\n.*`)
c.Check(s.api.Logs["crunch-run"].String(), Matches, `(?ms).*Executing container: zzzzz-zzzzz-zzzzzzzzzzzzzzz.*`)
c.Check(s.api.Logs["crunch-run"].String(), Matches, `(?ms).*Using container runtime: stub.*`)
}
func (s *TestSuite) TestContainerRecordLog(c *C) {
s.fullRunHelper(c, `{
"command": ["sleep", "1"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`, nil, 0,
func() {
time.Sleep(time.Second)
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Assert(s.api.Logs["container"], NotNil)
c.Check(s.api.Logs["container"].String(), Matches, `(?ms).*container_image.*`)
}
func (s *TestSuite) TestFullRunStderr(c *C) {
s.fullRunHelper(c, `{
"command": ["/bin/sh", "-c", "echo hello ; echo world 1>&2 ; exit 1"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`, nil, 1, func() {
fmt.Fprintln(s.executor.created.Stdout, "hello")
fmt.Fprintln(s.executor.created.Stderr, "world")
})
final := s.api.CalledWith("container.state", "Complete")
c.Assert(final, NotNil)
c.Check(final["container"].(arvadosclient.Dict)["exit_code"], Equals, 1)
c.Check(final["container"].(arvadosclient.Dict)["log"], NotNil)
c.Check(s.api.Logs["stdout"].String(), Matches, ".*hello\n")
c.Check(s.api.Logs["stderr"].String(), Matches, ".*world\n")
}
func (s *TestSuite) TestFullRunDefaultCwd(c *C) {
s.fullRunHelper(c, `{
"command": ["pwd"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`, nil, 0, func() {
fmt.Fprintf(s.executor.created.Stdout, "workdir=%q", s.executor.created.WorkingDir)
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Log(s.api.Logs["stdout"])
c.Check(s.api.Logs["stdout"].String(), Matches, `.*workdir=""\n`)
}
func (s *TestSuite) TestFullRunSetCwd(c *C) {
s.fullRunHelper(c, `{
"command": ["pwd"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": "/bin",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`, nil, 0, func() {
fmt.Fprintln(s.executor.created.Stdout, s.executor.created.WorkingDir)
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Check(s.api.Logs["stdout"].String(), Matches, ".*/bin\n")
}
func (s *TestSuite) TestFullRunSetOutputStorageClasses(c *C) {
s.fullRunHelper(c, `{
"command": ["pwd"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": "/bin",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked",
"output_storage_classes": ["foo", "bar"]
}`, nil, 0, func() {
fmt.Fprintln(s.executor.created.Stdout, s.executor.created.WorkingDir)
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Check(s.api.Logs["stdout"].String(), Matches, ".*/bin\n")
c.Check(s.testDispatcherKeepClient.StorageClasses, DeepEquals, []string{"foo", "bar"})
c.Check(s.testContainerKeepClient.StorageClasses, DeepEquals, []string{"foo", "bar"})
}
func (s *TestSuite) TestEnableCUDADeviceCount(c *C) {
s.fullRunHelper(c, `{
"command": ["pwd"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": "/bin",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {"cuda": {"device_count": 2}},
"state": "Locked",
"output_storage_classes": ["foo", "bar"]
}`, nil, 0, func() {
fmt.Fprintln(s.executor.created.Stdout, "ok")
})
c.Check(s.executor.created.CUDADeviceCount, Equals, 2)
}
func (s *TestSuite) TestEnableCUDAHardwareCapability(c *C) {
s.fullRunHelper(c, `{
"command": ["pwd"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": "/bin",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {"cuda": {"hardware_capability": "foo"}},
"state": "Locked",
"output_storage_classes": ["foo", "bar"]
}`, nil, 0, func() {
fmt.Fprintln(s.executor.created.Stdout, "ok")
})
c.Check(s.executor.created.CUDADeviceCount, Equals, 0)
}
func (s *TestSuite) TestStopOnSignal(c *C) {
s.executor.runFunc = func() {
s.executor.created.Stdout.Write([]byte("foo\n"))
s.runner.SigChan <- syscall.SIGINT
}
s.testStopContainer(c)
}
func (s *TestSuite) TestStopOnArvMountDeath(c *C) {
s.executor.runFunc = func() {
s.executor.created.Stdout.Write([]byte("foo\n"))
s.runner.ArvMountExit <- nil
close(s.runner.ArvMountExit)
}
s.runner.ArvMountExit = make(chan error)
s.testStopContainer(c)
}
func (s *TestSuite) testStopContainer(c *C) {
record := `{
"command": ["/bin/sh", "-c", "echo foo && sleep 30 && echo bar"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`
err := json.Unmarshal([]byte(record), &s.api.Container)
c.Assert(err, IsNil)
s.runner.RunArvMount = func([]string, string) (*exec.Cmd, error) { return nil, nil }
s.runner.MkArvClient = func(token string) (IArvadosClient, IKeepClient, *arvados.Client, error) {
return &ArvTestClient{}, &KeepTestClient{}, nil, nil
}
done := make(chan error)
go func() {
done <- s.runner.Run()
}()
select {
case <-time.After(20 * time.Second):
pprof.Lookup("goroutine").WriteTo(os.Stderr, 1)
c.Fatal("timed out")
case err = <-done:
c.Check(err, IsNil)
}
for k, v := range s.api.Logs {
c.Log(k)
c.Log(v.String(), "\n")
}
c.Check(s.api.CalledWith("container.log", nil), NotNil)
c.Check(s.api.CalledWith("container.state", "Cancelled"), NotNil)
c.Check(s.api.Logs["stdout"].String(), Matches, "(?ms).*foo\n$")
}
func (s *TestSuite) TestFullRunSetEnv(c *C) {
s.fullRunHelper(c, `{
"command": ["/bin/sh", "-c", "echo $FROBIZ"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": "/bin",
"environment": {"FROBIZ": "bilbo"},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`, nil, 0, func() {
fmt.Fprintf(s.executor.created.Stdout, "%v", s.executor.created.Env)
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Check(s.api.Logs["stdout"].String(), Matches, `.*map\[FROBIZ:bilbo\]\n`)
}
type ArvMountCmdLine struct {
Cmd []string
token string
}
func (am *ArvMountCmdLine) ArvMountTest(c []string, token string) (*exec.Cmd, error) {
am.Cmd = c
am.token = token
return nil, nil
}
func stubCert(temp string) string {
path := temp + "/ca-certificates.crt"
crt, _ := os.Create(path)
crt.Close()
arvadosclient.CertFiles = []string{path}
return path
}
func (s *TestSuite) TestSetupMounts(c *C) {
cr := s.runner
am := &ArvMountCmdLine{}
cr.RunArvMount = am.ArvMountTest
cr.ContainerArvClient = &ArvTestClient{}
cr.ContainerKeepClient = &KeepTestClient{}
cr.Container.OutputStorageClasses = []string{"default"}
realTemp := c.MkDir()
certTemp := c.MkDir()
stubCertPath := stubCert(certTemp)
cr.parentTemp = realTemp
i := 0
cr.MkTempDir = func(_ string, prefix string) (string, error) {
i++
d := fmt.Sprintf("%s/%s%d", realTemp, prefix, i)
err := os.Mkdir(d, os.ModePerm)
if err != nil && strings.Contains(err.Error(), ": file exists") {
// Test case must have pre-populated the tempdir
err = nil
}
return d, err
}
checkEmpty := func() {
// Should be deleted.
_, err := os.Stat(realTemp)
c.Assert(os.IsNotExist(err), Equals, true)
// Now recreate it for the next test.
c.Assert(os.Mkdir(realTemp, 0777), IsNil)
}
{
i = 0
cr.ArvMountPoint = ""
cr.Container.Mounts = make(map[string]arvados.Mount)
cr.Container.Mounts["/tmp"] = arvados.Mount{Kind: "tmp"}
cr.Container.OutputPath = "/tmp"
cr.statInterval = 5 * time.Second
bindmounts, err := cr.SetupMounts()
c.Check(err, IsNil)
c.Check(am.Cmd, DeepEquals, []string{"arv-mount", "--foreground",
"--read-write", "--storage-classes", "default", "--crunchstat-interval=5",
"--mount-by-pdh", "by_id", "--disable-event-listening", "--mount-by-id", "by_uuid", realTemp + "/keep1"})
c.Check(bindmounts, DeepEquals, map[string]bindmount{"/tmp": {realTemp + "/tmp2", false}})
os.RemoveAll(cr.ArvMountPoint)
cr.CleanupDirs()
checkEmpty()
}
{
i = 0
cr.ArvMountPoint = ""
cr.Container.Mounts = make(map[string]arvados.Mount)
cr.Container.Mounts["/out"] = arvados.Mount{Kind: "tmp"}
cr.Container.Mounts["/tmp"] = arvados.Mount{Kind: "tmp"}
cr.Container.OutputPath = "/out"
cr.Container.OutputStorageClasses = []string{"foo", "bar"}
bindmounts, err := cr.SetupMounts()
c.Check(err, IsNil)
c.Check(am.Cmd, DeepEquals, []string{"arv-mount", "--foreground",
"--read-write", "--storage-classes", "foo,bar", "--crunchstat-interval=5",
"--mount-by-pdh", "by_id", "--disable-event-listening", "--mount-by-id", "by_uuid", realTemp + "/keep1"})
c.Check(bindmounts, DeepEquals, map[string]bindmount{"/out": {realTemp + "/tmp2", false}, "/tmp": {realTemp + "/tmp3", false}})
os.RemoveAll(cr.ArvMountPoint)
cr.CleanupDirs()
checkEmpty()
}
{
i = 0
cr.ArvMountPoint = ""
cr.Container.Mounts = make(map[string]arvados.Mount)
cr.Container.Mounts["/tmp"] = arvados.Mount{Kind: "tmp"}
cr.Container.OutputPath = "/tmp"
cr.Container.RuntimeConstraints.API = true
cr.Container.OutputStorageClasses = []string{"default"}
bindmounts, err := cr.SetupMounts()
c.Check(err, IsNil)
c.Check(am.Cmd, DeepEquals, []string{"arv-mount", "--foreground",
"--read-write", "--storage-classes", "default", "--crunchstat-interval=5",
"--mount-by-pdh", "by_id", "--disable-event-listening", "--mount-by-id", "by_uuid", realTemp + "/keep1"})
c.Check(bindmounts, DeepEquals, map[string]bindmount{"/tmp": {realTemp + "/tmp2", false}, "/etc/arvados/ca-certificates.crt": {stubCertPath, true}})
os.RemoveAll(cr.ArvMountPoint)
cr.CleanupDirs()
checkEmpty()
cr.Container.RuntimeConstraints.API = false
}
{
i = 0
cr.ArvMountPoint = ""
cr.Container.Mounts = map[string]arvados.Mount{
"/keeptmp": {Kind: "collection", Writable: true},
}
cr.Container.OutputPath = "/keeptmp"
os.MkdirAll(realTemp+"/keep1/tmp0", os.ModePerm)
bindmounts, err := cr.SetupMounts()
c.Check(err, IsNil)
c.Check(am.Cmd, DeepEquals, []string{"arv-mount", "--foreground",
"--read-write", "--storage-classes", "default", "--crunchstat-interval=5",
"--mount-tmp", "tmp0", "--mount-by-pdh", "by_id", "--disable-event-listening", "--mount-by-id", "by_uuid", realTemp + "/keep1"})
c.Check(bindmounts, DeepEquals, map[string]bindmount{"/keeptmp": {realTemp + "/keep1/tmp0", false}})
os.RemoveAll(cr.ArvMountPoint)
cr.CleanupDirs()
checkEmpty()
}
{
i = 0
cr.ArvMountPoint = ""
cr.Container.Mounts = map[string]arvados.Mount{
"/keepinp": {Kind: "collection", PortableDataHash: "59389a8f9ee9d399be35462a0f92541c+53"},
"/keepout": {Kind: "collection", Writable: true},
}
cr.Container.OutputPath = "/keepout"
os.MkdirAll(realTemp+"/keep1/by_id/59389a8f9ee9d399be35462a0f92541c+53", os.ModePerm)
os.MkdirAll(realTemp+"/keep1/tmp0", os.ModePerm)
bindmounts, err := cr.SetupMounts()
c.Check(err, IsNil)
c.Check(am.Cmd, DeepEquals, []string{"arv-mount", "--foreground",
"--read-write", "--storage-classes", "default", "--crunchstat-interval=5",
"--mount-tmp", "tmp0", "--mount-by-pdh", "by_id", "--disable-event-listening", "--mount-by-id", "by_uuid", realTemp + "/keep1"})
c.Check(bindmounts, DeepEquals, map[string]bindmount{
"/keepinp": {realTemp + "/keep1/by_id/59389a8f9ee9d399be35462a0f92541c+53", true},
"/keepout": {realTemp + "/keep1/tmp0", false},
})
os.RemoveAll(cr.ArvMountPoint)
cr.CleanupDirs()
checkEmpty()
}
{
i = 0
cr.ArvMountPoint = ""
cr.Container.RuntimeConstraints.KeepCacheRAM = 512
cr.Container.Mounts = map[string]arvados.Mount{
"/keepinp": {Kind: "collection", PortableDataHash: "59389a8f9ee9d399be35462a0f92541c+53"},
"/keepout": {Kind: "collection", Writable: true},
}
cr.Container.OutputPath = "/keepout"
os.MkdirAll(realTemp+"/keep1/by_id/59389a8f9ee9d399be35462a0f92541c+53", os.ModePerm)
os.MkdirAll(realTemp+"/keep1/tmp0", os.ModePerm)
bindmounts, err := cr.SetupMounts()
c.Check(err, IsNil)
c.Check(am.Cmd, DeepEquals, []string{"arv-mount", "--foreground",
"--read-write", "--storage-classes", "default", "--crunchstat-interval=5",
"--file-cache", "512", "--mount-tmp", "tmp0", "--mount-by-pdh", "by_id", "--disable-event-listening", "--mount-by-id", "by_uuid", realTemp + "/keep1"})
c.Check(bindmounts, DeepEquals, map[string]bindmount{
"/keepinp": {realTemp + "/keep1/by_id/59389a8f9ee9d399be35462a0f92541c+53", true},
"/keepout": {realTemp + "/keep1/tmp0", false},
})
os.RemoveAll(cr.ArvMountPoint)
cr.CleanupDirs()
checkEmpty()
}
for _, test := range []struct {
in interface{}
out string
}{
{in: "foo", out: `"foo"`},
{in: nil, out: `null`},
{in: map[string]int64{"foo": 123456789123456789}, out: `{"foo":123456789123456789}`},
} {
i = 0
cr.ArvMountPoint = ""
cr.Container.Mounts = map[string]arvados.Mount{
"/mnt/test.json": {Kind: "json", Content: test.in},
}
bindmounts, err := cr.SetupMounts()
c.Check(err, IsNil)
c.Check(bindmounts, DeepEquals, map[string]bindmount{
"/mnt/test.json": {realTemp + "/json2/mountdata.json", true},
})
content, err := ioutil.ReadFile(realTemp + "/json2/mountdata.json")
c.Check(err, IsNil)
c.Check(content, DeepEquals, []byte(test.out))
os.RemoveAll(cr.ArvMountPoint)
cr.CleanupDirs()
checkEmpty()
}
for _, test := range []struct {
in interface{}
out string
}{
{in: "foo", out: `foo`},
{in: nil, out: "error"},
{in: map[string]int64{"foo": 123456789123456789}, out: "error"},
} {
i = 0
cr.ArvMountPoint = ""
cr.Container.Mounts = map[string]arvados.Mount{
"/mnt/test.txt": {Kind: "text", Content: test.in},
}
bindmounts, err := cr.SetupMounts()
if test.out == "error" {
c.Check(err.Error(), Equals, "content for mount \"/mnt/test.txt\" must be a string")
} else {
c.Check(err, IsNil)
c.Check(bindmounts, DeepEquals, map[string]bindmount{
"/mnt/test.txt": {realTemp + "/text2/mountdata.text", true},
})
content, err := ioutil.ReadFile(realTemp + "/text2/mountdata.text")
c.Check(err, IsNil)
c.Check(content, DeepEquals, []byte(test.out))
}
os.RemoveAll(cr.ArvMountPoint)
cr.CleanupDirs()
checkEmpty()
}
// Read-only mount points are allowed underneath output_dir mount point
{
i = 0
cr.ArvMountPoint = ""
cr.Container.Mounts = make(map[string]arvados.Mount)
cr.Container.Mounts = map[string]arvados.Mount{
"/tmp": {Kind: "tmp"},
"/tmp/foo": {Kind: "collection"},
}
cr.Container.OutputPath = "/tmp"
os.MkdirAll(realTemp+"/keep1/tmp0", os.ModePerm)
bindmounts, err := cr.SetupMounts()
c.Check(err, IsNil)
c.Check(am.Cmd, DeepEquals, []string{"arv-mount", "--foreground",
"--read-write", "--storage-classes", "default", "--crunchstat-interval=5",
"--file-cache", "512", "--mount-tmp", "tmp0", "--mount-by-pdh", "by_id", "--disable-event-listening", "--mount-by-id", "by_uuid", realTemp + "/keep1"})
c.Check(bindmounts, DeepEquals, map[string]bindmount{
"/tmp": {realTemp + "/tmp2", false},
"/tmp/foo": {realTemp + "/keep1/tmp0", true},
})
os.RemoveAll(cr.ArvMountPoint)
cr.CleanupDirs()
checkEmpty()
}
// Writable mount points copied to output_dir mount point
{
i = 0
cr.ArvMountPoint = ""
cr.Container.Mounts = make(map[string]arvados.Mount)
cr.Container.Mounts = map[string]arvados.Mount{
"/tmp": {Kind: "tmp"},
"/tmp/foo": {Kind: "collection",
PortableDataHash: "59389a8f9ee9d399be35462a0f92541c+53",
Writable: true},
"/tmp/bar": {Kind: "collection",
PortableDataHash: "59389a8f9ee9d399be35462a0f92541d+53",
Path: "baz",
Writable: true},
}
cr.Container.OutputPath = "/tmp"
os.MkdirAll(realTemp+"/keep1/by_id/59389a8f9ee9d399be35462a0f92541c+53", os.ModePerm)
os.MkdirAll(realTemp+"/keep1/by_id/59389a8f9ee9d399be35462a0f92541d+53/baz", os.ModePerm)
rf, _ := os.Create(realTemp + "/keep1/by_id/59389a8f9ee9d399be35462a0f92541d+53/baz/quux")
rf.Write([]byte("bar"))
rf.Close()
_, err := cr.SetupMounts()
c.Check(err, IsNil)
_, err = os.Stat(cr.HostOutputDir + "/foo")
c.Check(err, IsNil)
_, err = os.Stat(cr.HostOutputDir + "/bar/quux")
c.Check(err, IsNil)
os.RemoveAll(cr.ArvMountPoint)
cr.CleanupDirs()
checkEmpty()
}
// Only mount points of kind 'collection' are allowed underneath output_dir mount point
{
i = 0
cr.ArvMountPoint = ""
cr.Container.Mounts = make(map[string]arvados.Mount)
cr.Container.Mounts = map[string]arvados.Mount{
"/tmp": {Kind: "tmp"},
"/tmp/foo": {Kind: "tmp"},
}
cr.Container.OutputPath = "/tmp"
_, err := cr.SetupMounts()
c.Check(err, NotNil)
c.Check(err, ErrorMatches, `only mount points of kind 'collection', 'text' or 'json' are supported underneath the output_path.*`)
os.RemoveAll(cr.ArvMountPoint)
cr.CleanupDirs()
checkEmpty()
}
// Only mount point of kind 'collection' is allowed for stdin
{
i = 0
cr.ArvMountPoint = ""
cr.Container.Mounts = make(map[string]arvados.Mount)
cr.Container.Mounts = map[string]arvados.Mount{
"stdin": {Kind: "tmp"},
}
_, err := cr.SetupMounts()
c.Check(err, NotNil)
c.Check(err, ErrorMatches, `unsupported mount kind 'tmp' for stdin.*`)
os.RemoveAll(cr.ArvMountPoint)
cr.CleanupDirs()
checkEmpty()
}
// git_tree mounts
{
i = 0
cr.ArvMountPoint = ""
(*GitMountSuite)(nil).useTestGitServer(c)
cr.token = arvadostest.ActiveToken
cr.Container.Mounts = make(map[string]arvados.Mount)
cr.Container.Mounts = map[string]arvados.Mount{
"/tip": {
Kind: "git_tree",
UUID: arvadostest.Repository2UUID,
Commit: "fd3531f42995344f36c30b79f55f27b502f3d344",
Path: "/",
},
"/non-tip": {
Kind: "git_tree",
UUID: arvadostest.Repository2UUID,
Commit: "5ebfab0522851df01fec11ec55a6d0f4877b542e",
Path: "/",
},
}
cr.Container.OutputPath = "/tmp"
bindmounts, err := cr.SetupMounts()
c.Check(err, IsNil)
for path, mount := range bindmounts {
c.Check(mount.ReadOnly, Equals, !cr.Container.Mounts[path].Writable, Commentf("%s %#v", path, mount))
}
data, err := ioutil.ReadFile(bindmounts["/tip"].HostPath + "/dir1/dir2/file with mode 0644")
c.Check(err, IsNil)
c.Check(string(data), Equals, "\000\001\002\003")
_, err = ioutil.ReadFile(bindmounts["/tip"].HostPath + "/file only on testbranch")
c.Check(err, FitsTypeOf, &os.PathError{})
c.Check(os.IsNotExist(err), Equals, true)
data, err = ioutil.ReadFile(bindmounts["/non-tip"].HostPath + "/dir1/dir2/file with mode 0644")
c.Check(err, IsNil)
c.Check(string(data), Equals, "\000\001\002\003")
data, err = ioutil.ReadFile(bindmounts["/non-tip"].HostPath + "/file only on testbranch")
c.Check(err, IsNil)
c.Check(string(data), Equals, "testfile\n")
cr.CleanupDirs()
checkEmpty()
}
}
func (s *TestSuite) TestStdout(c *C) {
helperRecord := `{
"command": ["/bin/sh", "-c", "echo $FROBIZ"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": "/bin",
"environment": {"FROBIZ": "bilbo"},
"mounts": {"/tmp": {"kind": "tmp"}, "stdout": {"kind": "file", "path": "/tmp/a/b/c.out"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`
s.fullRunHelper(c, helperRecord, nil, 0, func() {
fmt.Fprintln(s.executor.created.Stdout, s.executor.created.Env["FROBIZ"])
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Check(s.runner.ContainerArvClient.(*ArvTestClient).CalledWith("collection.manifest_text", "./a/b 307372fa8fd5c146b22ae7a45b49bc31+6 0:6:c.out\n"), NotNil)
}
// Used by the TestStdoutWithWrongPath*()
func (s *TestSuite) stdoutErrorRunHelper(c *C, record string, fn func()) (*ArvTestClient, *ContainerRunner, error) {
err := json.Unmarshal([]byte(record), &s.api.Container)
c.Assert(err, IsNil)
s.executor.runFunc = fn
s.runner.RunArvMount = (&ArvMountCmdLine{}).ArvMountTest
s.runner.MkArvClient = func(token string) (IArvadosClient, IKeepClient, *arvados.Client, error) {
return s.api, &KeepTestClient{}, nil, nil
}
return s.api, s.runner, s.runner.Run()
}
func (s *TestSuite) TestStdoutWithWrongPath(c *C) {
_, _, err := s.stdoutErrorRunHelper(c, `{
"mounts": {"/tmp": {"kind": "tmp"}, "stdout": {"kind": "file", "path":"/tmpa.out"} },
"output_path": "/tmp",
"state": "Locked"
}`, func() {})
c.Check(err, ErrorMatches, ".*Stdout path does not start with OutputPath.*")
}
func (s *TestSuite) TestStdoutWithWrongKindTmp(c *C) {
_, _, err := s.stdoutErrorRunHelper(c, `{
"mounts": {"/tmp": {"kind": "tmp"}, "stdout": {"kind": "tmp", "path":"/tmp/a.out"} },
"output_path": "/tmp",
"state": "Locked"
}`, func() {})
c.Check(err, ErrorMatches, ".*unsupported mount kind 'tmp' for stdout.*")
}
func (s *TestSuite) TestStdoutWithWrongKindCollection(c *C) {
_, _, err := s.stdoutErrorRunHelper(c, `{
"mounts": {"/tmp": {"kind": "tmp"}, "stdout": {"kind": "collection", "path":"/tmp/a.out"} },
"output_path": "/tmp",
"state": "Locked"
}`, func() {})
c.Check(err, ErrorMatches, ".*unsupported mount kind 'collection' for stdout.*")
}
func (s *TestSuite) TestFullRunWithAPI(c *C) {
s.fullRunHelper(c, `{
"command": ["/bin/sh", "-c", "true $ARVADOS_API_HOST"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": "/bin",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {"API": true},
"state": "Locked"
}`, nil, 0, func() {
c.Check(s.executor.created.Env["ARVADOS_API_HOST"], Equals, os.Getenv("ARVADOS_API_HOST"))
s.executor.exit <- 3
})
c.Check(s.api.CalledWith("container.exit_code", 3), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Check(s.api.Logs["crunch-run"].String(), Matches, `(?ms).*status code 3\n.*`)
}
func (s *TestSuite) TestFullRunSetOutput(c *C) {
defer os.Setenv("ARVADOS_API_HOST", os.Getenv("ARVADOS_API_HOST"))
os.Setenv("ARVADOS_API_HOST", "test.arvados.org")
s.fullRunHelper(c, `{
"command": ["/bin/sh", "-c", "echo $ARVADOS_API_HOST"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": "/bin",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {"API": true},
"state": "Locked"
}`, nil, 0, func() {
s.api.Container.Output = arvadostest.DockerImage112PDH
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Check(s.api.CalledWith("container.output", arvadostest.DockerImage112PDH), NotNil)
}
func (s *TestSuite) TestArvMountRuntimeStatusWarning(c *C) {
s.runner.RunArvMount = func([]string, string) (*exec.Cmd, error) {
os.Mkdir(s.runner.ArvMountPoint+"/by_id", 0666)
ioutil.WriteFile(s.runner.ArvMountPoint+"/by_id/README", nil, 0666)
return s.runner.ArvMountCmd([]string{"bash", "-c", "echo >&2 Test: Keep write error: I am a teapot; sleep 3"}, "")
}
s.executor.runFunc = func() {
time.Sleep(time.Second)
s.executor.exit <- 137
}
record := `{
"command": ["sleep", "1"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": "/bin",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {"API": true},
"state": "Locked"
}`
err := json.Unmarshal([]byte(record), &s.api.Container)
c.Assert(err, IsNil)
err = s.runner.Run()
c.Assert(err, IsNil)
c.Check(s.api.CalledWith("container.exit_code", 137), NotNil)
c.Check(s.api.CalledWith("container.runtime_status.warning", "arv-mount: Keep write error"), NotNil)
c.Check(s.api.CalledWith("container.runtime_status.warningDetail", "Test: Keep write error: I am a teapot"), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Check(s.api.Logs["crunch-run"].String(), Matches, `(?ms).*Container exited with status code 137 \(signal 9, SIGKILL\).*`)
}
func (s *TestSuite) TestStdoutWithExcludeFromOutputMountPointUnderOutputDir(c *C) {
helperRecord := `{
"command": ["/bin/sh", "-c", "echo $FROBIZ"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": "/bin",
"environment": {"FROBIZ": "bilbo"},
"mounts": {
"/tmp": {"kind": "tmp"},
"/tmp/foo": {"kind": "collection",
"portable_data_hash": "a3e8f74c6f101eae01fa08bfb4e49b3a+54",
"exclude_from_output": true
},
"stdout": {"kind": "file", "path": "/tmp/a/b/c.out"}
},
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`
extraMounts := []string{"a3e8f74c6f101eae01fa08bfb4e49b3a+54"}
s.fullRunHelper(c, helperRecord, extraMounts, 0, func() {
fmt.Fprintln(s.executor.created.Stdout, s.executor.created.Env["FROBIZ"])
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Check(s.runner.ContainerArvClient.(*ArvTestClient).CalledWith("collection.manifest_text", "./a/b 307372fa8fd5c146b22ae7a45b49bc31+6 0:6:c.out\n"), NotNil)
}
func (s *TestSuite) TestStdoutWithMultipleMountPointsUnderOutputDir(c *C) {
helperRecord := `{
"command": ["/bin/sh", "-c", "echo $FROBIZ"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": "/bin",
"environment": {"FROBIZ": "bilbo"},
"mounts": {
"/tmp": {"kind": "tmp"},
"/tmp/foo/bar": {"kind": "collection", "portable_data_hash": "a0def87f80dd594d4675809e83bd4f15+367", "path":"/file2_in_main.txt"},
"/tmp/foo/sub1": {"kind": "collection", "portable_data_hash": "a0def87f80dd594d4675809e83bd4f15+367", "path":"/subdir1"},
"/tmp/foo/sub1file2": {"kind": "collection", "portable_data_hash": "a0def87f80dd594d4675809e83bd4f15+367", "path":"/subdir1/file2_in_subdir1.txt"},
"/tmp/foo/baz/sub2file2": {"kind": "collection", "portable_data_hash": "a0def87f80dd594d4675809e83bd4f15+367", "path":"/subdir1/subdir2/file2_in_subdir2.txt"},
"stdout": {"kind": "file", "path": "/tmp/a/b/c.out"}
},
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`
extraMounts := []string{
"a0def87f80dd594d4675809e83bd4f15+367/file2_in_main.txt",
"a0def87f80dd594d4675809e83bd4f15+367/subdir1/file2_in_subdir1.txt",
"a0def87f80dd594d4675809e83bd4f15+367/subdir1/subdir2/file2_in_subdir2.txt",
}
api, _, realtemp := s.fullRunHelper(c, helperRecord, extraMounts, 0, func() {
fmt.Fprintln(s.executor.created.Stdout, s.executor.created.Env["FROBIZ"])
})
c.Check(s.executor.created.BindMounts, DeepEquals, map[string]bindmount{
"/tmp": {realtemp + "/tmp1", false},
"/tmp/foo/bar": {s.keepmount + "/by_id/a0def87f80dd594d4675809e83bd4f15+367/file2_in_main.txt", true},
"/tmp/foo/baz/sub2file2": {s.keepmount + "/by_id/a0def87f80dd594d4675809e83bd4f15+367/subdir1/subdir2/file2_in_subdir2.txt", true},
"/tmp/foo/sub1": {s.keepmount + "/by_id/a0def87f80dd594d4675809e83bd4f15+367/subdir1", true},
"/tmp/foo/sub1file2": {s.keepmount + "/by_id/a0def87f80dd594d4675809e83bd4f15+367/subdir1/file2_in_subdir1.txt", true},
})
c.Check(api.CalledWith("container.exit_code", 0), NotNil)
c.Check(api.CalledWith("container.state", "Complete"), NotNil)
for _, v := range api.Content {
if v["collection"] != nil {
c.Check(v["ensure_unique_name"], Equals, true)
collection := v["collection"].(arvadosclient.Dict)
if strings.Index(collection["name"].(string), "output") == 0 {
manifest := collection["manifest_text"].(string)
c.Check(manifest, Equals, `./a/b 307372fa8fd5c146b22ae7a45b49bc31+6 0:6:c.out
./foo 3e426d509afffb85e06c4c96a7c15e91+27+Aa124ac75e5168396c73c0abcdefgh11234567890@569fa8c3 3e426d509afffb85e06c4c96a7c15e91+27+Aa124ac75e5168396cabcdefghij6419876543234@569fa8c4 9:18:bar 36:18:sub1file2
./foo/baz 3e426d509afffb85e06c4c96a7c15e91+27+Aa124ac75e5168396c73c0bcdefghijk544332211@569fa8c5 9:18:sub2file2
./foo/sub1 3e426d509afffb85e06c4c96a7c15e91+27+Aa124ac75e5168396cabcdefghij6419876543234@569fa8c4 0:9:file1_in_subdir1.txt 9:18:file2_in_subdir1.txt
./foo/sub1/subdir2 3e426d509afffb85e06c4c96a7c15e91+27+Aa124ac75e5168396c73c0bcdefghijk544332211@569fa8c5 0:9:file1_in_subdir2.txt 9:18:file2_in_subdir2.txt
`)
}
}
}
}
func (s *TestSuite) TestStdoutWithMountPointsUnderOutputDirDenormalizedManifest(c *C) {
helperRecord := `{
"command": ["/bin/sh", "-c", "echo $FROBIZ"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": "/bin",
"environment": {"FROBIZ": "bilbo"},
"mounts": {
"/tmp": {"kind": "tmp"},
"/tmp/foo/bar": {"kind": "collection", "portable_data_hash": "b0def87f80dd594d4675809e83bd4f15+367", "path": "/subdir1/file2_in_subdir1.txt"},
"stdout": {"kind": "file", "path": "/tmp/a/b/c.out"}
},
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`
extraMounts := []string{
"b0def87f80dd594d4675809e83bd4f15+367/subdir1/file2_in_subdir1.txt",
}
s.fullRunHelper(c, helperRecord, extraMounts, 0, func() {
fmt.Fprintln(s.executor.created.Stdout, s.executor.created.Env["FROBIZ"])
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
for _, v := range s.api.Content {
if v["collection"] != nil {
collection := v["collection"].(arvadosclient.Dict)
if strings.Index(collection["name"].(string), "output") == 0 {
manifest := collection["manifest_text"].(string)
c.Check(manifest, Equals, `./a/b 307372fa8fd5c146b22ae7a45b49bc31+6 0:6:c.out
./foo 3e426d509afffb85e06c4c96a7c15e91+27+Aa124ac75e5168396c73c0abcdefgh11234567890@569fa8c3 10:17:bar
`)
}
}
}
}
func (s *TestSuite) TestOutputError(c *C) {
helperRecord := `{
"command": ["/bin/sh", "-c", "echo $FROBIZ"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": "/bin",
"environment": {"FROBIZ": "bilbo"},
"mounts": {
"/tmp": {"kind": "tmp"}
},
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`
s.fullRunHelper(c, helperRecord, nil, 0, func() {
os.Symlink("/etc/hosts", s.runner.HostOutputDir+"/baz")
})
c.Check(s.api.CalledWith("container.state", "Cancelled"), NotNil)
}
func (s *TestSuite) TestStdinCollectionMountPoint(c *C) {
helperRecord := `{
"command": ["/bin/sh", "-c", "echo $FROBIZ"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": "/bin",
"environment": {"FROBIZ": "bilbo"},
"mounts": {
"/tmp": {"kind": "tmp"},
"stdin": {"kind": "collection", "portable_data_hash": "b0def87f80dd594d4675809e83bd4f15+367", "path": "/file1_in_main.txt"},
"stdout": {"kind": "file", "path": "/tmp/a/b/c.out"}
},
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`
extraMounts := []string{
"b0def87f80dd594d4675809e83bd4f15+367/file1_in_main.txt",
}
api, _, _ := s.fullRunHelper(c, helperRecord, extraMounts, 0, func() {
fmt.Fprintln(s.executor.created.Stdout, s.executor.created.Env["FROBIZ"])
})
c.Check(api.CalledWith("container.exit_code", 0), NotNil)
c.Check(api.CalledWith("container.state", "Complete"), NotNil)
for _, v := range api.Content {
if v["collection"] != nil {
collection := v["collection"].(arvadosclient.Dict)
if strings.Index(collection["name"].(string), "output") == 0 {
manifest := collection["manifest_text"].(string)
c.Check(manifest, Equals, `./a/b 307372fa8fd5c146b22ae7a45b49bc31+6 0:6:c.out
`)
}
}
}
}
func (s *TestSuite) TestStdinJsonMountPoint(c *C) {
helperRecord := `{
"command": ["/bin/sh", "-c", "echo $FROBIZ"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": "/bin",
"environment": {"FROBIZ": "bilbo"},
"mounts": {
"/tmp": {"kind": "tmp"},
"stdin": {"kind": "json", "content": "foo"},
"stdout": {"kind": "file", "path": "/tmp/a/b/c.out"}
},
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`
api, _, _ := s.fullRunHelper(c, helperRecord, nil, 0, func() {
fmt.Fprintln(s.executor.created.Stdout, s.executor.created.Env["FROBIZ"])
})
c.Check(api.CalledWith("container.exit_code", 0), NotNil)
c.Check(api.CalledWith("container.state", "Complete"), NotNil)
for _, v := range api.Content {
if v["collection"] != nil {
collection := v["collection"].(arvadosclient.Dict)
if strings.Index(collection["name"].(string), "output") == 0 {
manifest := collection["manifest_text"].(string)
c.Check(manifest, Equals, `./a/b 307372fa8fd5c146b22ae7a45b49bc31+6 0:6:c.out
`)
}
}
}
}
func (s *TestSuite) TestStderrMount(c *C) {
api, cr, _ := s.fullRunHelper(c, `{
"command": ["/bin/sh", "-c", "echo hello;exit 1"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"},
"stdout": {"kind": "file", "path": "/tmp/a/out.txt"},
"stderr": {"kind": "file", "path": "/tmp/b/err.txt"}},
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`, nil, 1, func() {
fmt.Fprintln(s.executor.created.Stdout, "hello")
fmt.Fprintln(s.executor.created.Stderr, "oops")
})
final := api.CalledWith("container.state", "Complete")
c.Assert(final, NotNil)
c.Check(final["container"].(arvadosclient.Dict)["exit_code"], Equals, 1)
c.Check(final["container"].(arvadosclient.Dict)["log"], NotNil)
c.Check(cr.ContainerArvClient.(*ArvTestClient).CalledWith("collection.manifest_text", "./a b1946ac92492d2347c6235b4d2611184+6 0:6:out.txt\n./b 38af5c54926b620264ab1501150cf189+5 0:5:err.txt\n"), NotNil)
}
func (s *TestSuite) TestNumberRoundTrip(c *C) {
s.api.callraw = true
err := s.runner.fetchContainerRecord()
c.Assert(err, IsNil)
jsondata, err := json.Marshal(s.runner.Container.Mounts["/json"].Content)
c.Logf("%#v", s.runner.Container)
c.Check(err, IsNil)
c.Check(string(jsondata), Equals, `{"number":123456789123456789}`)
}
func (s *TestSuite) TestFullBrokenDocker(c *C) {
nextState := ""
for _, setup := range []func(){
func() {
c.Log("// waitErr = ocl runtime error")
s.executor.waitErr = errors.New(`Error response from daemon: oci runtime error: container_linux.go:247: starting container process caused "process_linux.go:359: container init caused \"rootfs_linux.go:54: mounting \\\"/tmp/keep453790790/by_id/99999999999999999999999999999999+99999/myGenome\\\" to rootfs \\\"/tmp/docker/overlay2/9999999999999999999999999999999999999999999999999999999999999999/merged\\\" at \\\"/tmp/docker/overlay2/9999999999999999999999999999999999999999999999999999999999999999/merged/keep/99999999999999999999999999999999+99999/myGenome\\\" caused \\\"no such file or directory\\\"\""`)
nextState = "Cancelled"
},
func() {
c.Log("// loadErr = cannot connect")
s.executor.loadErr = errors.New("Cannot connect to the Docker daemon at unix:///var/run/docker.sock. Is the docker daemon running?")
s.runner.brokenNodeHook = c.MkDir() + "/broken-node-hook"
err := ioutil.WriteFile(s.runner.brokenNodeHook, []byte("#!/bin/sh\nexec echo killme\n"), 0700)
c.Assert(err, IsNil)
nextState = "Queued"
},
} {
s.SetUpTest(c)
setup()
s.fullRunHelper(c, `{
"command": ["echo", "hello world"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`, nil, 0, func() {})
c.Check(s.api.CalledWith("container.state", nextState), NotNil)
c.Check(s.api.Logs["crunch-run"].String(), Matches, "(?ms).*unable to run containers.*")
if s.runner.brokenNodeHook != "" {
c.Check(s.api.Logs["crunch-run"].String(), Matches, "(?ms).*Running broken node hook.*")
c.Check(s.api.Logs["crunch-run"].String(), Matches, "(?ms).*killme.*")
c.Check(s.api.Logs["crunch-run"].String(), Not(Matches), "(?ms).*Writing /var/lock/crunch-run-broken to mark node as broken.*")
} else {
c.Check(s.api.Logs["crunch-run"].String(), Matches, "(?ms).*Writing /var/lock/crunch-run-broken to mark node as broken.*")
}
}
}
func (s *TestSuite) TestBadCommand(c *C) {
for _, startError := range []string{
`panic: standard_init_linux.go:175: exec user process caused "no such file or directory"`,
`Error response from daemon: Cannot start container 41f26cbc43bcc1280f4323efb1830a394ba8660c9d1c2b564ba42bf7f7694845: [8] System error: no such file or directory`,
`Error response from daemon: Cannot start container 58099cd76c834f3dc2a4fb76c8028f049ae6d4fdf0ec373e1f2cfea030670c2d: [8] System error: exec: "foobar": executable file not found in $PATH`,
} {
s.SetUpTest(c)
s.executor.startErr = errors.New(startError)
s.fullRunHelper(c, `{
"command": ["echo", "hello world"],
"container_image": "`+arvadostest.DockerImage112PDH+`",
"cwd": ".",
"environment": {},
"mounts": {"/tmp": {"kind": "tmp"} },
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`, nil, 0, func() {})
c.Check(s.api.CalledWith("container.state", "Cancelled"), NotNil)
c.Check(s.api.Logs["crunch-run"].String(), Matches, "(?ms).*Possible causes:.*is missing.*")
}
}
func (s *TestSuite) TestSecretTextMountPoint(c *C) {
helperRecord := `{
"command": ["true"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": "/bin",
"mounts": {
"/tmp": {"kind": "tmp"},
"/tmp/secret.conf": {"kind": "text", "content": "mypassword"}
},
"secret_mounts": {
},
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`
s.fullRunHelper(c, helperRecord, nil, 0, func() {
content, err := ioutil.ReadFile(s.runner.HostOutputDir + "/secret.conf")
c.Check(err, IsNil)
c.Check(string(content), Equals, "mypassword")
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Check(s.runner.ContainerArvClient.(*ArvTestClient).CalledWith("collection.manifest_text", ". 34819d7beeabb9260a5c854bc85b3e44+10 0:10:secret.conf\n"), NotNil)
c.Check(s.runner.ContainerArvClient.(*ArvTestClient).CalledWith("collection.manifest_text", ""), IsNil)
// under secret mounts, not captured in output
helperRecord = `{
"command": ["true"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": "/bin",
"mounts": {
"/tmp": {"kind": "tmp"}
},
"secret_mounts": {
"/tmp/secret.conf": {"kind": "text", "content": "mypassword"}
},
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`
s.SetUpTest(c)
s.fullRunHelper(c, helperRecord, nil, 0, func() {
content, err := ioutil.ReadFile(s.runner.HostOutputDir + "/secret.conf")
c.Check(err, IsNil)
c.Check(string(content), Equals, "mypassword")
})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Check(s.runner.ContainerArvClient.(*ArvTestClient).CalledWith("collection.manifest_text", ". 34819d7beeabb9260a5c854bc85b3e44+10 0:10:secret.conf\n"), IsNil)
c.Check(s.runner.ContainerArvClient.(*ArvTestClient).CalledWith("collection.manifest_text", ""), NotNil)
// under secret mounts, output dir is a collection, not captured in output
helperRecord = `{
"command": ["true"],
"container_image": "` + arvadostest.DockerImage112PDH + `",
"cwd": "/bin",
"mounts": {
"/tmp": {"kind": "collection", "writable": true}
},
"secret_mounts": {
"/tmp/secret.conf": {"kind": "text", "content": "mypassword"}
},
"output_path": "/tmp",
"priority": 1,
"runtime_constraints": {},
"state": "Locked"
}`
s.SetUpTest(c)
_, _, realtemp := s.fullRunHelper(c, helperRecord, nil, 0, func() {
// secret.conf should be provisioned as a separate
// bind mount, i.e., it should not appear in the
// (fake) fuse filesystem as viewed from the host.
content, err := ioutil.ReadFile(s.runner.HostOutputDir + "/secret.conf")
if !c.Check(errors.Is(err, os.ErrNotExist), Equals, true) {
c.Logf("secret.conf: content %q, err %#v", content, err)
}
err = ioutil.WriteFile(s.runner.HostOutputDir+"/.arvados#collection", []byte(`{"manifest_text":". acbd18db4cc2f85cedef654fccc4a4d8+3 0:3:foo.txt\n"}`), 0700)
c.Check(err, IsNil)
})
content, err := ioutil.ReadFile(realtemp + "/text1/mountdata.text")
c.Check(err, IsNil)
c.Check(string(content), Equals, "mypassword")
c.Check(s.executor.created.BindMounts["/tmp/secret.conf"], DeepEquals, bindmount{realtemp + "/text1/mountdata.text", true})
c.Check(s.api.CalledWith("container.exit_code", 0), NotNil)
c.Check(s.api.CalledWith("container.state", "Complete"), NotNil)
c.Check(s.runner.ContainerArvClient.(*ArvTestClient).CalledWith("collection.manifest_text", ". acbd18db4cc2f85cedef654fccc4a4d8+3 0:3:foo.txt\n"), NotNil)
}
type FakeProcess struct {
cmdLine []string
}
func (fp FakeProcess) CmdlineSlice() ([]string, error) {
return fp.cmdLine, nil
}