Add default Intel MPI env variables to MPIJob #1804

tkatila · 2023-05-09T12:35:35Z

What this PR does / why we need it:

When the container is equipped with Intel MPI, the end user has had to manually add Intel MPI specific env variables for the MPIJob. This modifies the operator to add the variables with default values, if there are no user defined variables.

google-cla · 2023-05-09T12:35:40Z

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johnugeorge · 2023-05-09T18:18:33Z

/assign @tenzen-y

coveralls · 2023-05-09T18:21:48Z

Pull Request Test Coverage Report for Build 5002839939

28 of 28 (100.0%) changed or added relevant lines in 2 files are covered.
No unchanged relevant lines lost coverage.
Overall coverage increased (+0.4%) to 40.135%

Totals
Change from base Build 4988117671:	0.4%
Covered Lines:	2791
Relevant Lines:	6954

💛 - Coveralls

tenzen-y · 2023-05-10T05:49:30Z

@tkatila Can you sign a CLA? Thanks for your contributions.

tkatila · 2023-05-10T06:00:49Z

@tkatila Can you sign a CLA? Thanks for your contributions.

Yes, I will. I just have to get confirmation from corp level on it first.

pkg/controller.v1/mpi/mpijob.go

pkg/controller.v1/mpi/mpijob_controller.go

tenzen-y · 2023-05-13T15:26:35Z

pkg/controller.v1/mpi/mpijob_controller.go

@@ -1152,6 +1152,20 @@ func (jc *MPIJobReconciler) newLauncher(mpiJob *kubeflowv1.MPIJob, kubectlDelive
 			})
 	}

+	// Add default Intel MPI bootstrap variables if none is provided by the user
+	if !hasIntelMPIBootstrap(container.Env) {


In this implementation, if only I_MPI_HYDRA_BOOTSTRAP is set (I_MPI_HYDRA_BOOTSTRAP_EXEC is unset), it will skip this section.

Can we check both I_MPI_HYDRA_BOOTSTRAP and I_MPI_HYDRA_BOOTSTRAP_EXEC?
And then, should we set env vars if either is unset?

In this implementation, if only I_MPI_HYDRA_BOOTSTRAP is set (I_MPI_HYDRA_BOOTSTRAP_EXEC is unset), it will skip this section.

Can we check both I_MPI_HYDRA_BOOTSTRAP and I_MPI_HYDRA_BOOTSTRAP_EXEC?

hasIntelMPIBootstrap checks for I_MPI_HYDRA_BOOTSTRAP prefix so it includes both ..BOOTSTRAP and ..BOOSTRAP_EXEC. Actually, it also applies to two other variables that I didn't take into account: https://www.intel.com/content/www/us/en/docs/mpi-library/developer-reference-linux/2021-9/hydra-environment-variables.html#GUID-CF3DA5C7-8B4D-468F-B463-42DCA7E0E55E and https://www.intel.com/content/www/us/en/docs/mpi-library/developer-reference-linux/2021-9/hydra-environment-variables.html#GUID-F0F7163C-3674-4AEC-A945-9D62BFA1CE68

And then, should we set env vars if either is unset?

Maybe it's better that way. I'll change it.

hasIntelMPIBootstrap checks for I_MPI_HYDRA_BOOTSTRAP prefix so it includes both ..BOOTSTRAP and ..BOOSTRAP_EXEC. Actually, it also applies to two other variables that I didn't take into account: https://www.intel.com/content/www/us/en/docs/mpi-library/developer-reference-linux/2021-9/hydra-environment-variables.html#GUID-CF3DA5C7-8B4D-468F-B463-42DCA7E0E55E and https://www.intel.com/content/www/us/en/docs/mpi-library/developer-reference-linux/2021-9/hydra-environment-variables.html#GUID-F0F7163C-3674-4AEC-A945-9D62BFA1CE68

Oh, it is great information :)
Mentioning which env vars (I_MPI_HYDRA_BOOTSTRAP, I_MPI_HYDRA_BOOTSTRAP_EXEC , I_MPI_HYDRA_BOOTSTRAP_EXEC_EXTRA_ARGS , and I_MPI_HYDRA_BOOTSTRAP_AUTOFORK ) are considered in the comment would be great.

I added a mention of the extra two variables to the comments. I also modified the code to set either of the missing variables.

fyi, still waiting on the CLA, should get it sorted during this week.

I added a mention of the extra two variables to the comments. I also modified the code to set either of the missing variables.

Thank you for the updates! I left a few comments.

fyi, still waiting on the CLA, should get it sorted during this week.

Thanks for letting me know!

pkg/controller.v1/mpi/mpijob_controller.go

pkg/controller.v1/mpi/mpijob_controller_test.go

tenzen-y

Thank you for addressing my comments.
I left the last review comments for some nit.

pkg/controller.v1/mpi/mpijob_controller_test.go

eero-t · 2023-05-17T13:17:39Z

There were several mpi-operator IntelMPI support PRs in 2021, that this can be compared against: https://github.com/kubeflow/mpi-operator/pulls?q=is%3Apr+intel+mpi+is%3Aclosed

Most important ones are:

IntelMPI vs. OpenMPI worker slots format support: Add slots to hostfile mpi-operator#523
Option for which MPI implementation is in question: add support for using Intel MPI(2019.7) and MVAPICH2 mpi-operator#283

Without them, user needs to manually specify slot counts on the MPIJob command lines.

These could also relevant, but do not belong to this PR:

Connection repeat for robustness: Add support for Intel MPI mpi-operator#389
Readiness probe when SSH is used: Add readiness probe to Intel MPI jobs mpi-operator#425
E2E tests robustness: Fix intel MPI E2E test image mpi-operator#417
Examples: Add base images and make PI samples inherit from it mpi-operator#419

tenzen-y · 2023-05-17T17:24:20Z

There were several mpi-operator IntelMPI support PRs in 2021, that this can be compared against: https://github.com/kubeflow/mpi-operator/pulls?q=is%3Apr+intel+mpi+is%3Aclosed

Most important ones are:

IntelMPI vs. OpenMPI worker slots format support: Add slots to hostfile mpi-operator#523

Option for which MPI implementation is in question: add support for using Intel MPI(2019.7) and MVAPICH2 mpi-operator#283

Without them, user needs to manually specify slot counts on the MPIJob command lines.

These could also relevant, but do not belong to this PR:

Connection repeat for robustness: Add support for Intel MPI mpi-operator#389

Readiness probe when SSH is used: Add readiness probe to Intel MPI jobs mpi-operator#425

E2E tests robustness: Fix intel MPI E2E test image mpi-operator#417

Examples: Add base images and make PI samples inherit from it mpi-operator#419

@eero-t Thank you for the great suggestion. However, we can discuss your proposals in another issue.
So, can you create an issue?

tenzen-y

@tkatila Thank you for the great contribution!

This PR looks good to me.

Please let me know once you signed the CLA.

eero-t · 2023-05-17T17:49:06Z

@eero-t Thank you for the great suggestion. However, we can discuss your proposals in another issue. So, can you create an issue?

Done (see above). Most likely I won't be able to verify it when it eventually gets fixed as mpi-operator project seems to be as active as this project and already support all 3 major MPI variants, so I'll go with it. I just noticed those issues when reviewing k8s MPI implementation alternatives...

tenzen-y · 2023-05-17T17:54:04Z

@eero-t Thank you for the great suggestion. However, we can discuss your proposals in another issue. So, can you create an issue?

Done (see above). Most likely I won't be able to verify it when it eventually gets fixed as mpi-operator project seems to be as active as this project and already support all 3 major MPI variants, so I'll go with it. I just noticed those issues when reviewing k8s MPI implementation alternatives...

Yes, the mpi-operator is an active project with some performance improvement and supports the queueing feature by Kueue.
So, I would suggest using the mpi-operator if you don't have any issues to use the mpi-operator.

tenzen-y · 2023-06-09T15:26:05Z

@tkatila ping

tkatila · 2023-06-10T12:52:38Z

@tkatila ping

pong. I'm really sorry for the delay. I hit some corporate scheninagans, but most of the things sorted themselves out this Friday. I'm hoping to sign the CLA next week.

tenzen-y · 2023-06-10T14:03:12Z

@tkatila ping

pong. I'm really sorry for the delay. I hit some corporate scheninagans, but most of the things sorted themselves out this Friday. I'm hoping to sign the CLA next week.

Thank you for letting me know!

tkatila · 2023-06-12T19:56:10Z

The CLA is now done.

tenzen-y · 2023-06-12T20:29:06Z

@tkatila Thanks! Welcome to Kubeflow Community 🎉
/lgtm
/assign @johnugeorge @terrytangyuan

tenzen-y · 2023-06-15T18:07:42Z

ping @johnugeorge

johnugeorge · 2023-06-18T17:29:24Z

Sorry. I missed this.

@tkatila Can you do a rebase?

Co-authored-by: Yuki Iwai <yuki.iwai.tz@gmail.com> Signed-off-by: Tuomas Katila <tuomas.katila@intel.com>

tkatila · 2023-06-18T18:18:12Z

@tkatila Can you do a rebase?

Sure. Rebased.

tenzen-y · 2023-06-18T18:18:51Z

/lgtm

terrytangyuan

Thanks!

/lgtm

google-oss-prow · 2023-06-19T00:47:41Z

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google-oss-prow bot requested review from jinchihe and kuizhiqing May 9, 2023 12:35

google-oss-prow bot added the size/M label May 9, 2023

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tkatila force-pushed the intel-mpi-env-variables branch from f37df17 to 1ae623a Compare May 15, 2023 09:40

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tkatila force-pushed the intel-mpi-env-variables branch from 1ae623a to b5948f1 Compare May 16, 2023 06:46

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tkatila force-pushed the intel-mpi-env-variables branch from b08dee8 to 8d43989 Compare May 17, 2023 11:52

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eero-t mentioned this pull request May 17, 2023

IntelMPI support #1807

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google-oss-prow bot assigned johnugeorge and terrytangyuan Jun 12, 2023

google-oss-prow bot added the lgtm label Jun 12, 2023

Add default Intel MPI env variables to MPIJob

55b13b6

Co-authored-by: Yuki Iwai <yuki.iwai.tz@gmail.com> Signed-off-by: Tuomas Katila <tuomas.katila@intel.com>

tkatila force-pushed the intel-mpi-env-variables branch from 8d43989 to 55b13b6 Compare June 18, 2023 18:17

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google-oss-prow bot merged commit 7383114 into kubeflow:master Jun 19, 2023

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Add default Intel MPI env variables to MPIJob #1804

Add default Intel MPI env variables to MPIJob #1804

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Add default Intel MPI env variables to MPIJob #1804

Add default Intel MPI env variables to MPIJob #1804

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