skip blocks with out-of-order chunk during compaction #4469

huyan0 · 2021-07-22T15:59:23Z

Signed-off-by: Yang Hu yhuz@amazon.com

I added CHANGELOG entry for this change.
Change is not relevant to the end user.

Changes

add a check for OOO chunks in block index, and mark such block for no compaction, and continue on with the compaction
add testutil to generate an index with OOO chunks

Verification

verified the exepected behavior with compact_e2e_test.go

Addresses: #3442
cc: @yeya24 @alvinlin123 @roystchiang

yeya24

Love it! Super high-quality code. Thanks for the contribution @huyan0

cmd/thanos/compact.go

alvinlin123 · 2021-07-22T18:48:21Z

pkg/block/index.go

-
-	if i.OutOfOrderSeries > 0 {
-		errMsg = append(errMsg, fmt.Sprintf(
+func (i HealthStats) OutOfOrderChunksErr() error {


I am wondering, do you think we can just skip compaction for all the CriticalErr; instead of just OutOfOrderChunksErr?

I think it's okay on the compact side given we cannot generate more blocks than not compacting...I don't think there's much implication on the retrieval side either but would like to hear what @yeya24 thinks : )
@yeya24 do you have some context on why the project decided to halt compaction in the first place?

@bwplotka do you have some context on the discussion? :)

huyan0 · 2021-07-27T16:16:16Z

I have updated the metric counter, will add to changelog if there's no further comments for now @yeya24

yeya24

This pr LGTM. But it changes the default behavior and might be critical so it would be good to hear from other maintainers.

cc @thanos-io/thanos-maintainers

wiardvanrij · 2021-07-29T07:36:33Z

The code looks solid and you referenced an issue. If I understand correctly, we now mark it as corrupted and skip it. That still leaves a block corrupted. Are there any follow-up steps that a user could do? Basically I would really love to have some documentation on:

How could one find corrupted blocks?
What is the impact for the user if that happens?
Could one still fix a corrupted block and let it get compacted after the fact?
anything else that provides context to users

This would IMO be the cherry on top :)

bwplotka · 2021-07-29T17:46:12Z

TODO: Can we check if those blocks are readable by Thanos Store/Cortex Store

bwplotka · 2021-07-29T17:48:29Z

TODO: Review & check for consistency with other issues and how we handle them (:

huyan0 · 2021-07-30T23:43:13Z

@bwplotka regarding your two comments:

the blocks are still readable because the mark that we add to the block is for compact only, and the store API has no requirement on whether the chunks are sorted: link
We handle this error differently than the other errors encountered during compaction; for those we halt the compaction. Other than OOO chunks, the two other specific errors compact check for are these , for which we attempt to repair or compacts if a feature flag is set, so I don't see an overarching consistent approach to adhere to, other than logging the occurrence to provide context for user. This is understandable since these errors are unexpected and specific. I agree a deep dive into the root cause is needed to address this in long term to come up with a fix for the root cause.

huyan0 · 2021-08-09T16:19:26Z

PR still pending review :) Any updates needed?

cmd/thanos/compact.go

yeya24 · 2021-08-09T19:57:27Z

Btw let's update the changelog and we are ready to go I think

yeya24 · 2021-08-11T07:14:33Z

@huyan0 Sorry for the late review. I will merge the pr after you resolve the conflict.

huyan0 · 2021-08-11T15:01:19Z

hello, I have rebased : )

yeya24

LGTM

yeya24 · 2021-08-11T22:16:09Z

Looks like the E2E is still failing and caused by this pr.

21:58:23 Killing sidecar-remote-and-sidecar
21:58:23 compact-expect-to-halt: panic: inconsistent label cardinality: expected 2 label values but got 1 in []string{"deletion-mark.json"}
21:58:23 compact-expect-to-halt: goroutine 1 [running]:
21:58:23 compact-expect-to-halt: github.com/prometheus/client_golang/prometheus.(*CounterVec).WithLabelValues(0xc00000f9b8, 0xc000887840, 0x1, 0x1, 0x2035af0, 0xc00019f320)
21:58:23 compact-expect-to-halt: /home/runner/go/pkg/mod/github.com/prometheus/client_golang@v1.10.0/prometheus/counter.go:248 +0xff
21:58:23 compact-expect-to-halt: main.newCompactMetrics(0xc0001a0640, 0x9d29229e0000, 0x1ba7500)
21:58:23 compact-expect-to-halt: /home/runner/work/thanos/thanos/cmd/thanos/compact.go:152 +0x5cd
21:58:23 compact-expect-to-halt: main.runCompact(0xc00049d5a8, 0x1ff4040, 0xc000889410, 0x201c490, 0x2e02e80, 0xc0001a0640, 0x1ff8d80, 0xc0008876b0, 0x1, 0x4, ...)
21:58:23 compact-expect-to-halt: /home/runner/work/thanos/thanos/cmd/thanos/compact.go:171 +0xc5
21:58:23 compact-expect-to-halt: main.registerCompact.func1(0xc00049d5a8, 0x1ff4040, 0xc000889410, 0xc0001a0640, 0x201c490, 0x2e02e80, 0xc000083e60, 0x0, 0x4169fb, 0x7f5f11773100)

yeya24

There might be other panics caused by that deletion marker metric. Please check and fix them. Thanks for the patience.

cmd/thanos/compact.go

pkg/compact/compact.go

yeya24 · 2021-08-12T00:18:45Z

Can you do a rebase on latest main rather than including changes from another pr.

CHANGELOG.md

pkg/compact/compact.go

pkg/testutil/testutil.go

yeya24

LGTM

huyan0 · 2021-08-12T17:33:05Z

looking... Sorry for the back and forth. Will try to address it

Signed-off-by: Yang Hu <yhuz@amazon.com>

yeya24

LGTM! Thanks for the contribution.

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skip blocks with out-of-order chunk during compaction

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Signed-off-by: Yang Hu <yhuz@amazon.com>

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yeya24 merged commit 07b377f into thanos-io:main Aug 13, 2021

This was referenced Aug 13, 2021

Fix -compact.skip-block-with-out-of-order-chunks #4566

Merged

Upgrade Thanos and simplify store-gateway metrics grafana/mimir#142

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huyan0 mentioned this pull request Aug 16, 2021

update thanos to include skip out of order chunks in compactor cortexproject/cortex#4423

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huyan0 mentioned this pull request Sep 1, 2021

upgrade thanos that include skip bad blocks during compaction cortexproject/cortex#4453

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AndrewNiven1 mentioned this pull request Nov 30, 2021

Improve handling of out-of-order chunks #4916

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shybbko mentioned this pull request Mar 30, 2022

Compactor is unable to properly compact blocks cortexproject/cortex#4677

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alanprot mentioned this pull request Apr 7, 2022

Add shuffle-sharding for the compactor cortexproject/cortex#4433

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skip blocks with out-of-order chunk during compaction #4469

skip blocks with out-of-order chunk during compaction #4469

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skip blocks with out-of-order chunk during compaction #4469

skip blocks with out-of-order chunk during compaction #4469

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