feat(deploy): separate -storage and -db pods #923

mwangggg · 2024-07-23T14:41:39Z

Welcome to Cryostat! 👋

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Resolved all conflicts, if any
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Fixes: #814
Depends on #968

andrewazores · 2024-11-01T14:55:01Z

/build_test

andrewazores · 2024-11-01T14:59:58Z

https://github.com/cryostatio/cryostat-operator/actions/runs/11631338954

github-actions · 2024-11-01T15:18:01Z

/build_test : At least one test failed ❌.
View Actions Run.

andrewazores · 2024-11-01T16:00:32Z

@ebaron every scorecard test in the run seems to have state: pass, but the log ends like this:

		The heap is around 0.227 % full. There is likely no big benefit from enabling string deduplication.] name:String Deduplication score:12.901007290315437 topic:heap] SystemGc:map[evaluation:map[explanation:<nil> solution:<nil> suggestions:[] summary:No garbage collections were caused by System.gc().] name:GCs Caused by System.gc() score:0 topic:garbage_collection] TlabAllocationRatio:map[evaluation:map[explanation:<nil> solution:Allocating objects outside of Thread Local Allocation Buffers (TLABs) is more expensive than allocating inside TLABs. This may be acceptable if the individual allocations are intended to be larger than a reasonable TLAB. It may be possible to avoid this by decreasing the size of the individual allocations. There are some TLAB related JVM flags that you can experiment with, but it is usually better to let the JVM manage TLAB sizes automatically. suggestions:[] summary:The program allocated 48.4 % of the memory outside of TLABs.] name:TLAB Allocation Ratio score:46.712468530433846 topic
namespace "cryostat-operator-scorecard" deleted
make: *** [Makefile:199: test-scorecard] Error 1
Error: Process completed with exit code 2.

(that first piece is an automated analysis rule result snippet)

any idea what that's about? Is it a timeout?

andrewazores · 2024-11-04T14:48:20Z

/build_test

github-actions · 2024-11-04T15:11:50Z

/build_test : At least one test failed ❌.
View Actions Run.

ebaron · 2024-11-04T15:32:49Z

Looks like this one failed due to timeout in the most recent run:

2024-11-04T15:11:20.0968904Z Image:      ghcr.io/cryostatio/cryostat-operator-scorecard:pr-923-0ec9a84ffded9865671402790379c2884097f456
2024-11-04T15:11:20.0969353Z Entrypoint: [cryostat-scorecard-tests cryostat-multi-namespace]
2024-11-04T15:11:20.0969479Z Labels:
2024-11-04T15:11:20.0969613Z 	"suite":"cryostat"
2024-11-04T15:11:20.0969841Z 	"test":"cryostat-multi-namespace"
2024-11-04T15:11:20.0969969Z Results:
2024-11-04T15:11:20.0970194Z 	Name: cryostat-multi-namespace
2024-11-04T15:11:20.0970323Z 	State: fail
2024-11-04T15:11:20.0970330Z 
2024-11-04T15:11:20.0970456Z 	Errors:
2024-11-04T15:11:20.0970899Z 		Cryostat main deployment did not become available: context deadline exceeded
2024-11-04T15:11:20.0971548Z 		cryostat-multi-namespace test failed: context deadline exceeded

andrewazores · 2024-11-04T20:50:56Z

Weird. I can reproduce the failure locally with make test-scorecard, but make test-scorecard-local SCORECARD_TEST_SELECTION=operator-install,cryostat-cr,cryostat-multi-namespace,cryostat-recording,cryostat-config-change,cryostat-report seems to succeed.

andrewazores · 2024-11-04T21:26:33Z

NAME                                                                  READY   STATUS      RESTARTS   AGE
pod/andrewazores-cryostat-operator-bundle-4-0-0-split-deployments-4   1/1     Running     0          7m1s
pod/cryostat-operator-controller-5559bcd8b6-vm6k4                     1/1     Running     0          6m42s
pod/fa200ffb618b00c1795a2635f60894bdc36cfbb76a6db4f8c2748a6056gqnvm   0/1     Completed   0          6m57s
pod/scorecard-test-5n99                                               0/1     Completed   0          6m29s
pod/scorecard-test-7kxq                                               0/1     Completed   0          6m29s
pod/scorecard-test-f7lw                                               0/1     Completed   0          6m29s
pod/scorecard-test-hmxx                                               1/1     Running     0          5m48s
pod/scorecard-test-jq6r                                               0/1     Completed   0          6m22s
pod/scorecard-test-kjb2                                               0/1     Completed   0          6m29s
pod/scorecard-test-r7jb                                               0/1     Completed   0          6m25s
pod/scorecard-test-vtkt                                               0/1     Completed   0          6m29s
pod/scorecard-test-xbmc                                               0/1     Completed   0          6m29s

NAME                                           TYPE        CLUSTER-IP    EXTERNAL-IP   PORT(S)   AGE
service/cryostat-operator-controller-service   ClusterIP   10.217.5.60   <none>        443/TCP   6m42s
service/cryostat-operator-webhook-service      ClusterIP   10.217.5.23   <none>        443/TCP   6m45s

NAME                                           READY   UP-TO-DATE   AVAILABLE   AGE
deployment.apps/cryostat-operator-controller   1/1     1            1           6m42s

NAME                                                      DESIRED   CURRENT   READY   AGE
replicaset.apps/cryostat-operator-controller-5559bcd8b6   1         1         1       6m42s

NAME                                                                        STATUS     COMPLETIONS   DURATION   AGE
job.batch/fa200ffb618b00c1795a2635f60894bdc36cfbb76a6db4f8c2748a60563e689   Complete   1/1           8s         6m57s

function cleanup { ( set +e; /home/work/bin/operator-sdk cleanup -n cryostat-operator-scorecard cryostat-operator; /home/work/workspace/cryostat-operator/bin/kustomize build internal/images/custom-scorecard-tests/rbac/ | oc delete --ignore-not-found=false -f -; oc delete --ignore-not-found=false -n cryostat-operator-scorecard secret registry-key; oc delete --ignore-not-found=false namespace cryostat-operator-scorecard; ) }; cleanup
WARN[0000] Cleanup operator: package "cryostat-operator" not found 
Error from server (NotFound): error when deleting "STDIN": serviceaccounts "cryostat-scorecard" not found
Error from server (NotFound): error when deleting "STDIN": roles.rbac.authorization.k8s.io "cryostat-scorecard" not found
Error from server (NotFound): error when deleting "STDIN": clusterroles.rbac.authorization.k8s.io "cryostat-scorecard" not found
Error from server (NotFound): error when deleting "STDIN": rolebindings.rbac.authorization.k8s.io "cryostat-scorecard" not found
Error from server (NotFound): error when deleting "STDIN": clusterrolebindings.rbac.authorization.k8s.io "cryostat-scorecard" not found
Error from server (NotFound): secrets "registry-key" not found
Error from server (NotFound): namespaces "cryostat-operator-scorecard" not found
make: [Makefile:221: clean-scorecard] Error 1 (ignored)
mkdir -p /home/work/workspace/cryostat-operator/bin
test -s /home/work/workspace/cryostat-operator/bin/kustomize || { curl -Ss "https://raw.githubusercontent.com/kubernetes-sigs/kustomize/master/hack/install_kustomize.sh" | bash -s -- 4.5.7 /home/work/workspace/cryostat-operator/bin; }
oc create namespace cryostat-operator-scorecard && oc label --overwrite namespace cryostat-operator-scorecard pod-security.kubernetes.io/warn=restricted pod-security.kubernetes.io/audit=restricted
namespace/cryostat-operator-scorecard created
namespace/cryostat-operator-scorecard labeled
cd internal/images/custom-scorecard-tests/rbac/ && /home/work/workspace/cryostat-operator/bin/kustomize edit set namespace cryostat-operator-scorecard
/home/work/workspace/cryostat-operator/bin/kustomize build internal/images/custom-scorecard-tests/rbac/ | oc apply -f -
serviceaccount/cryostat-scorecard created
role.rbac.authorization.k8s.io/cryostat-scorecard created
clusterrole.rbac.authorization.k8s.io/cryostat-scorecard created
rolebinding.rbac.authorization.k8s.io/cryostat-scorecard created
clusterrolebinding.rbac.authorization.k8s.io/cryostat-scorecard created
/home/work/bin/operator-sdk run bundle -n cryostat-operator-scorecard --timeout 20m quay.io/andrewazores/cryostat-operator-bundle:4.0.0-split-deployments-4 --security-context-config=restricted 
INFO[0016] Creating a File-Based Catalog of the bundle "quay.io/andrewazores/cryostat-operator-bundle:4.0.0-split-deployments-4" 
INFO[0016] Generated a valid File-Based Catalog         
INFO[0019] Created registry pod: andrewazores-cryostat-operator-bundle-4-0-0-split-deployments-4 
INFO[0019] Created CatalogSource: cryostat-operator-catalog 
INFO[0019] OperatorGroup "operator-sdk-og" created      
INFO[0019] Created Subscription: cryostat-operator-v4-0-0-split-deployments-4-sub 
INFO[0030] Approved InstallPlan install-qzqrx for the Subscription: cryostat-operator-v4-0-0-split-deployments-4-sub 
INFO[0030] Waiting for ClusterServiceVersion "cryostat-operator-scorecard/cryostat-operator.v4.0.0-split-deployments-4" to reach 'Succeeded' phase 
INFO[0031]   Waiting for ClusterServiceVersion "cryostat-operator-scorecard/cryostat-operator.v4.0.0-split-deployments-4" to appear 
INFO[0033]   Found ClusterServiceVersion "cryostat-operator-scorecard/cryostat-operator.v4.0.0-split-deployments-4" phase: Pending 
INFO[0036]   Found ClusterServiceVersion "cryostat-operator-scorecard/cryostat-operator.v4.0.0-split-deployments-4" phase: Installing 
INFO[0037]   Found ClusterServiceVersion "cryostat-operator-scorecard/cryostat-operator.v4.0.0-split-deployments-4" phase: InstallReady 
INFO[0038]   Found ClusterServiceVersion "cryostat-operator-scorecard/cryostat-operator.v4.0.0-split-deployments-4" phase: Installing 
INFO[0047]   Found ClusterServiceVersion "cryostat-operator-scorecard/cryostat-operator.v4.0.0-split-deployments-4" phase: Succeeded 
INFO[0047] OLM has successfully installed "cryostat-operator.v4.0.0-split-deployments-4" 
function cleanup { ( set +e; /home/work/bin/operator-sdk cleanup -n cryostat-operator-scorecard cryostat-operator; /home/work/workspace/cryostat-operator/bin/kustomize build internal/images/custom-scorecard-tests/rbac/ | oc delete --ignore-not-found=false -f -; oc delete --ignore-not-found=false -n cryostat-operator-scorecard secret registry-key; oc delete --ignore-not-found=false namespace cryostat-operator-scorecard; ) } ; \
trap cleanup EXIT ; \
/home/work/bin/operator-sdk scorecard -n cryostat-operator-scorecard -s cryostat-scorecard -w 20m quay.io/andrewazores/cryostat-operator-bundle:4.0.0-split-deployments-4 --pod-security=restricted

$ oc logs -n cryostat-operator-scorecard -f pod/cryostat-operator-controller-5559bcd8b6-vm6k4

2024-11-04T21:17:55Z	ERROR	controllers.Cryostat	Failed to set up TLS for Cryostat	{"Request.Namespace": "cryostat-operator-scorecard", "Request.Name": "cryostat-multi-namespace", "error": "admission webhook \"webhook.cert-manager.io\" denied the request: spec.commonName: Too long: must have at most 64 bytes"}
github.com/cryostatio/cryostat-operator/internal/controllers.(*Reconciler).reconcileCryostat
	/workspace/internal/controllers/reconciler.go:249
github.com/cryostatio/cryostat-operator/internal/controllers.(*CryostatReconciler).Reconcile
	/workspace/internal/controllers/cryostat_controller.go:102
sigs.k8s.io/controller-runtime/pkg/internal/controller.(*Controller).Reconcile
	/go/pkg/mod/sigs.k8s.io/controller-runtime@v0.16.6/pkg/internal/controller/controller.go:119
sigs.k8s.io/controller-runtime/pkg/internal/controller.(*Controller).reconcileHandler
	/go/pkg/mod/sigs.k8s.io/controller-runtime@v0.16.6/pkg/internal/controller/controller.go:316
sigs.k8s.io/controller-runtime/pkg/internal/controller.(*Controller).processNextWorkItem
	/go/pkg/mod/sigs.k8s.io/controller-runtime@v0.16.6/pkg/internal/controller/controller.go:266
sigs.k8s.io/controller-runtime/pkg/internal/controller.(*Controller).Start.func2.2
	/go/pkg/mod/sigs.k8s.io/controller-runtime@v0.16.6/pkg/internal/controller/controller.go:227
2024-11-04T21:17:55Z	ERROR	Reconciler error	{"controller": "cryostat", "controllerGroup": "operator.cryostat.io", "controllerKind": "Cryostat", "Cryostat": {"name":"cryostat-multi-namespace","namespace":"cryostat-operator-scorecard"}, "namespace": "cryostat-operator-scorecard", "name": "cryostat-multi-namespace", "reconcileID": "4d033dc6-013b-408e-8fdf-92725ab727ae", "error": "admission webhook \"webhook.cert-manager.io\" denied the request: spec.commonName: Too long: must have at most 64 bytes"}
sigs.k8s.io/controller-runtime/pkg/internal/controller.(*Controller).reconcileHandler
	/go/pkg/mod/sigs.k8s.io/controller-runtime@v0.16.6/pkg/internal/controller/controller.go:329
sigs.k8s.io/controller-runtime/pkg/internal/controller.(*Controller).processNextWorkItem
	/go/pkg/mod/sigs.k8s.io/controller-runtime@v0.16.6/pkg/internal/controller/controller.go:266
sigs.k8s.io/controller-runtime/pkg/internal/controller.(*Controller).Start.func2.2
	/go/pkg/mod/sigs.k8s.io/controller-runtime@v0.16.6/pkg/internal/controller/controller.go:227
2024-11-04T21:17:59Z	INFO	controllers.Cryostat	Reconciling Cryostat	{"Request.Namespace": "cryostat-operator-scorecard", "Request.Name": "cryostat-cr"}
2024-11-04T21:17:59Z	INFO	controllers.Cryostat	Cryostat instance not found	{"Request.Namespace": "cryostat-operator-scorecard", "Request.Name": "cryostat-cr"}

andrewazores · 2024-11-04T21:27:48Z

#964 ^

github-actions · 2024-12-20T16:13:25Z

This PR/issue depends on:

~~fix(tls): use fixed-length cert CommonNames #968~~
By Dependent Issues (🤖). Happy coding!

andrewazores · 2024-12-20T16:13:49Z

/build_test

github-actions · 2024-12-20T16:26:41Z

/build_test completed successfully ✅.
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andrewazores · 2024-12-20T17:05:35Z

Rebased since #968 was merged to main, along with other recent changes.

Target to a new upstream split-deployment feature branch. This one will eventually merge into main, hopefully in time for 4.0 release. Other changes that need to go into that branch, building on top of this one:

ensure auth between components
TLS between components
NetworkPolicies for ingress?

andrewazores · 2024-12-20T18:36:47Z

To test:

Install cert manager. make cert_manager
Check out, build and deploy. BUNDLE_IMG=quay.io/andrewazores/cryostat-operator-bundle:4.0.0-split-deployment-1 make deploy_bundle
Create a namespace. oc new-project cryostat
Create a Cryostat CR. TARGET_NAMESPACES=$(oc project -q) make create_cryostat_cr
Wait for installation to complete. The resulting deployment should look like this:


NAME                                                                  READY   STATUS      RESTARTS   AGE
pod/andrewazores-cryostat-operator-bundle-4-0-0-split-deployment-1    1/1     Running     0          113m
pod/ba40d32483b3886b5308f8906f3e903cb1590653d501d129a3dd7fc90exszxh   0/1     Completed   0          113m
pod/cryostat-operator-controller-7697b8c757-7vshd                     1/1     Running     0          112m
pod/cryostat-sample-5b7d986897-7b7v4                                  5/5     Running     0          103m
pod/cryostat-sample-database-79bc5cf6c-9m6kt                          1/1     Running     0          103m
pod/cryostat-sample-storage-546cb7cb95-4wh46                          1/1     Running     0          103m

NAME                                           TYPE        CLUSTER-IP       EXTERNAL-IP   PORT(S)                       AGE
service/cryostat-operator-controller-service   ClusterIP   172.30.183.175   <none>        443/TCP                       112m
service/cryostat-operator-webhook-service      ClusterIP   172.30.151.71    <none>        443/TCP                       112m
service/cryostat-sample                        ClusterIP   172.30.90.129    <none>        4180/TCP                      103m
service/cryostat-sample-agent                  ClusterIP   172.30.155.75    <none>        8282/TCP                      103m
service/cryostat-sample-database               ClusterIP   172.30.20.91     <none>        5432/TCP                      103m
service/cryostat-sample-storage                ClusterIP   172.30.52.206    <none>        8333/TCP                      103m

NAME                                           READY   UP-TO-DATE   AVAILABLE   AGE
deployment.apps/cryostat-operator-controller   1/1     1            1           112m
deployment.apps/cryostat-sample                1/1     1            1           103m
deployment.apps/cryostat-sample-database       1/1     1            1           103m
deployment.apps/cryostat-sample-storage        1/1     1            1           103m

NAME                                       HOST/PORT                                                                      PATH   SERVICES          PORT   TERMINATION          WILDCARD
route.route.openshift.io/cryostat-sample   cryostat-sample-cryostat.redacted.com          cryostat-sample   4180   reencrypt/Redirect   None

i.e. the database and storage are separate Deployments with individual Services.
5. Open the web UI (Route host/port)
6. Deploy some sample applications. make sample_app_agent ; oc scale deployment quarkus-cryostat-agent --replicas=4
7. Ensure everything is working as expected. Try creating some automated rules, creating and archiving some recordings, etc. Try updating the CR to add reports replicas and ensure report generation works both before and after.

internal/controllers/pvc.go

internal/controllers/services.go

config/manager/kustomization.yaml

internal/controllers/common/resource_definitions/resource_definitions.go

andrewazores · 2025-01-13T17:15:03Z

Hmm, I broke something in that last set of refactoring. I'll figure it out after lunch.

andrewazores · 2025-01-13T17:15:27Z

2025-01-13T17:14:30Z	INFO	Observed a panic in reconciler: runtime error: invalid memory address or nil pointer dereference	{"controller": "cryostat", "controllerGroup": "operator.cryostat.io", "controllerKind": "Cryostat", "Cryostat": {"name":"cryostat-sample","namespace":"split-deployment"}, "namespace": "split-deployment", "name": "cryostat-sample", "reconcileID": "7f4fcbc5-d188-4d4d-8eb7-5b5f6073c700"}
panic: runtime error: invalid memory address or nil pointer dereference [recovered]
	panic: runtime error: invalid memory address or nil pointer dereference
[signal SIGSEGV: segmentation violation code=0x1 addr=0x8 pc=0x15e140a]

goroutine 328 [running]:
sigs.k8s.io/controller-runtime/pkg/internal/controller.(*Controller).Reconcile.func1()
	/go/pkg/mod/sigs.k8s.io/controller-runtime@v0.16.6/pkg/internal/controller/controller.go:116 +0x1e5
panic({0x17fa740?, 0x29fbe00?})
	/usr/local/go/src/runtime/panic.go:770 +0x132
github.com/cryostatio/cryostat-operator/internal/controllers/common/resource_definitions.NewDeploymentForDatabase(0xc000bb2ea0, 0xc0018034d0, 0xc0005d5300, 0x1, 0x3ba72610)
	/workspace/internal/controllers/common/resource_definitions/resource_definitions.go:233 +0x54a
github.com/cryostatio/cryostat-operator/internal/controllers.(*Reconciler).reconcileDatabase(0xc0000aef60, {0x1cf5920, 0xc000eaf470}, {{0x1cf98a8?, 0xc000eaf560?}, 0xc000bb2ea0?}, 0xc000bb2ea0, 0xc0005d5300, 0xc0018034d0, 0xc000f2bb88, ...)
	/workspace/internal/controllers/reconciler.go:427 +0x19f

api/v1beta2/cryostat_types.go

internal/controllers/services.go

ebaron · 2025-01-14T14:30:29Z

/build_test

github-actions · 2025-01-14T14:43:30Z

/build_test completed successfully ✅.
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mergify bot added the safe-to-test label Jul 23, 2024

andrewazores mentioned this pull request Jul 31, 2024

feat(db): use flyway for migrations cryostatio/cryostat#590

Merged

7 tasks

mwangggg added 9 commits August 29, 2024 11:47

tmp

2606ae2

tmp

67c708e

tmp

509d862

separate db and storage into pods

1815af8

tmp

fbe1eef

readd core PVC

eb57ec8

tmp without tls

f13ca56

tmp

c1581ea

add db and storage certs

9163ac7

mwangggg force-pushed the 814-separate-pods branch from 3df1d31 to 9163ac7 Compare August 29, 2024 15:48

andrewazores added 5 commits November 1, 2024 09:51

Merge branch 'main' into 814-separate-pods

b16facd

comment out incomplete/incorrect db/storage tls configs

28efdea

remove authproxy uid override

d4c0035

cryostat expects to talk to storage over http only for now

67cd857

correct envtests

f19babf

andrewazores added feat New feature or request blocked labels Nov 4, 2024

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github-actions bot removed the dependent label Dec 20, 2024

andrewazores marked this pull request as ready for review December 20, 2024 17:05

andrewazores requested a review from a team December 20, 2024 17:05

andrewazores removed the blocked label Jan 7, 2025

ebaron reviewed Jan 10, 2025

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andrewazores added 5 commits January 13, 2025 10:18

refactor

f424a67

database cleanup

769fd5b

make bundle

071607f

remove unused

add44dd

refactor

4717985

ebaron reviewed Jan 13, 2025

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api/v1beta2/cryostat_types.go Outdated Show resolved Hide resolved

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andrewazores added 4 commits January 13, 2025 13:25

rename

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nil-check

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format

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non-nil default value

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ebaron approved these changes Jan 14, 2025

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andrewazores mentioned this pull request Jan 14, 2025

[Task] Split PVCs #1004

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andrewazores merged commit 0f95870 into cryostatio:split-deployment Jan 14, 2025
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This was referenced Jan 14, 2025

[Story] Deploy database and storage containers separately #814

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feat(agent): add pod mutation webhook to inject agent #991

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feat(deploy): separate -storage and -db pods #923

feat(deploy): separate -storage and -db pods #923

mwangggg commented Jul 23, 2024 •

edited by andrewazores

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feat(deploy): separate -storage and -db pods #923

feat(deploy): separate -storage and -db pods #923

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mwangggg commented Jul 23, 2024 • edited by andrewazores Loading

Welcome to Cryostat! 👋

Before contributing, make sure you have:

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