fix possible error/crash in NCCL on x86 due to cpuid by Flamefire · Pull Request #19231 · easybuilders/easybuild-easyconfigs

Flamefire · 2023-11-14T12:11:10Z

(created using eb --new-pr)

I found this to be the cause for multiple failures of PyTorch on x86 (AMD EPYC) like:

distributed/_shard/checkpoint/test_checkpoint (8 total tests, failures=6)
distributed/_shard/checkpoint/test_file_system_checkpoint (6 total tests, failures=5)
distributed/_shard/sharded_optim/test_sharded_optim (2 total tests, failures=2)
distributed/_shard/sharded_tensor/ops/test_binary_cmp (4 total tests, failures=4)
distributed/_shard/sharded_tensor/ops/test_chunk (2 total tests, failures=2)
distributed/_shard/sharded_tensor/ops/test_elementwise_ops (4 total tests, failures=4)
distributed/_shard/sharded_tensor/ops/test_embedding (2 total tests, failures=2)
distributed/_shard/sharded_tensor/ops/test_embedding_bag (2 total tests, failures=2)
distributed/_shard/sharded_tensor/ops/test_init (3 total tests, failures=3)
distributed/_shard/sharded_tensor/ops/test_linear (3 total tests, failures=3)
distributed/_shard/sharded_tensor/ops/test_matrix_ops (11 total tests, failures=11)
distributed/_shard/sharded_tensor/ops/test_softmax (2 total tests, failures=2)
distributed/_shard/sharded_tensor/ops/test_tensor_ops (5 total tests, failures=5)
distributed/_shard/sharded_tensor/test_sharded_tensor (64 total tests, failures=50, errors=3, skipped=1)
distributed/_shard/sharded_tensor/test_sharded_tensor_reshard (2 total tests, failures=2)
distributed/_shard/sharding_plan/test_sharding_plan (5 total tests, failures=4, errors=1)
distributed/_shard/sharding_spec/test_sharding_spec (10 total tests, failures=2)
distributed/_shard/test_partial_tensor (5 total tests, failures=5)
distributed/algorithms/ddp_comm_hooks/test_ddp_hooks (6 total tests, failures=6)

Flamefire · 2023-11-14T12:57:32Z

Test report by @Flamefire
SUCCESS
Build succeeded for 9 out of 9 (9 easyconfigs in total)
taurusi8022 - Linux CentOS Linux 7.9.2009, x86_64, AMD EPYC 7352 24-Core Processor (zen2), 8 x NVIDIA NVIDIA A100-SXM4-40GB, 470.57.02, Python 2.7.5
See https://gist.github.com/Flamefire/6fd9b3902349f524045e196ef66013d4 for a full test report.

smoors · 2023-11-15T13:54:15Z

@boegelbot: please test @ generoso

boegelbot · 2023-11-15T13:55:08Z

@smoors: Request for testing this PR well received on login1

PR test command 'EB_PR=19231 EB_ARGS= EB_CONTAINER= EB_REPO=easybuild-easyconfigs /opt/software/slurm/bin/sbatch --job-name test_PR_19231 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

exit code: 0
output:

Submitted batch job 12167

Test results coming soon (I hope)...

Details

- notification for comment with ID 1812577674 processed

Message to humans: this is just bookkeeping information for me,
it is of no use to you (unless you think I have a bug, which I don't).

boegelbot · 2023-11-15T14:49:02Z

Test report by @boegelbot
FAILED
Build succeeded for 10 out of 11 (9 easyconfigs in total)
cns1 - Linux Rocky Linux 8.5, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/boegelbot/edda2ea705b3548178674c0fd51aeffc for a full test report.

smoors · 2023-11-15T15:27:02Z

FAIL (build issue) NCCL-2.18.3-GCCcore-12.3.0-CUDA-12.1.1.eb

== 2023-11-15 14:29:43,863 build_log.py:171 ERROR EasyBuild crashed with an error (at easybuild/easybuild-framework/easybuild/base/exceptions.py:126 in init): Checksum verification for /project/boegelbot/sources/n/NCCL/v2.18.3-1.tar.gz using {'v2.18.3-1.tar.gz': '6477d83c9edbb34a0ebce6d751a1b32962bc6415d75d04972b676c6894ceaef9'} failed. (at easybuild/easybuild-framework/easybuild/framework/easyblock.py:2457 in checksum_step)

Flamefire · 2023-11-15T15:37:52Z

FAIL (build issue) NCCL-2.18.3-GCCcore-12.3.0-CUDA-12.1.1.eb

== 2023-11-15 14:29:43,863 build_log.py:171 ERROR EasyBuild crashed with an error (at easybuild/easybuild-framework/easybuild/base/exceptions.py:126 in init): Checksum verification for /project/boegelbot/sources/n/NCCL/v2.18.3-1.tar.gz using {'v2.18.3-1.tar.gz': '6477d83c9edbb34a0ebce6d751a1b32962bc6415d75d04972b676c6894ceaef9'} failed. (at easybuild/easybuild-framework/easybuild/framework/easyblock.py:2457 in checksum_step)

That must be a download error on your site: wget -O- https://github.com/NVIDIA/NCCL/archive/v2.18.3-1.tar.gz | sha256sum shows 6477d83c9edbb34a0ebce6d751a1b32962bc6415d75d04972b676c6894ceaef9

branfosj · 2023-11-15T15:44:57Z

-checksums = [('6477d83c9edbb34a0ebce6d751a1b32962bc6415d75d04972b676c6894ceaef9',
-              'b4f5d7d9eea2c12e32e7a06fe138b2cfc75969c6d5c473aa6f819a792db2fc96')]
+patches = ['NCCL-2.16.2_fix-cpuid.patch']
+checksums = [
+    {'v2.18.3-1.tar.gz': '6477d83c9edbb34a0ebce6d751a1b32962bc6415d75d04972b676c6894ceaef9'},
+    {'NCCL-2.16.2_fix-cpuid.patch': '0459ecadcd32b2a7a000a2ce4f675afba908b2c0afabafde585330ff4f83e277'},
+]


Please restore the alternative checksum. See #18906

Oh, didn't notice that. Done 👍

Hitting a framework bug. Shall we resolve that first or shall I revert to non-dicts?

let's get this merged first?
checksumming is quite a mess at the moment. probably better to fix this in EB-5 so breaking changes can be made, see also easybuilders/easybuild-framework#4346

…1.eb

SebastianAchilles · 2023-11-16T09:40:24Z

A college of mine tried to run GROMACS with NCCL and ran into a Segmentation fault pointing to ncclTopoGetXmlFromCpu(). We tried to reduce it a bit. Without the patch for example broadcast_perf from https://github.com/NVIDIA/nccl-tests/tree/master fails using NCCL-2.18.3-GCCcore-12.3.0-CUDA-12.2.0.eb (we are using NCCL with a slightly newer CUDA version) also gives a Segmentation fault. With the patch the test works.
The patch looks good to me. 👍

Flamefire · 2023-11-16T10:00:06Z

A college of mine tried to run GROMACS with NCCL and ran into a Segmentation fault pointing to ncclTopoGetXmlFromCpu(). We tried to reduce it a bit. Without the patch for example broadcast_perf from https://github.com/NVIDIA/nccl-tests/tree/master fails using NCCL-2.18.3-GCCcore-12.3.0-CUDA-12.2.0.eb (we are using NCCL with a slightly newer CUDA version) also gives a Segmentation fault. With the patch the test works. The patch looks good to me. 👍

ncclTopoGetXmlFromCpu also was in the stacktrace on my machine and the GCC guys confirmed the issue there. So that fits, thanks for testing!

SebastianAchilles · 2023-11-16T10:20:44Z

@boegelbot please test @ generoso

boegelbot · 2023-11-16T10:25:08Z

@SebastianAchilles: Request for testing this PR well received on login1

PR test command 'EB_PR=19231 EB_ARGS= EB_CONTAINER= EB_REPO=easybuild-easyconfigs /opt/software/slurm/bin/sbatch --job-name test_PR_19231 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

exit code: 0
output:

Submitted batch job 12174

Test results coming soon (I hope)...

Details

- notification for comment with ID 1814160413 processed

Message to humans: this is just bookkeeping information for me,
it is of no use to you (unless you think I have a bug, which I don't).

SebastianAchilles · 2023-11-16T10:46:25Z

Test report by @SebastianAchilles
SUCCESS
Build succeeded for 3 out of 3 (3 easyconfigs in total)
bwd-rockylinux-92 - Linux Rocky Linux 9.2 (Blue Onyx), x86_64, Intel(R) Core(TM) i7-6900K CPU @ 3.20GHz (broadwell), 2 x NVIDIA NVIDIA GeForce GTX 1060 6GB, 535.129.03, Python 3.9.16
See https://gist.github.com/SebastianAchilles/40004bed8408b49ea44f790ad615be38 for a full test report.

SebastianAchilles · 2023-11-16T10:48:19Z

Test report by @SebastianAchilles
SUCCESS
Build succeeded for 4 out of 4 (4 easyconfigs in total)
skl-rockylinux-88 - Linux Rocky Linux 8.8, x86_64, Intel(R) Core(TM) i7-10700 CPU @ 2.90GHz (skylake), 1 x NVIDIA NVIDIA RTX A4000, 545.23.06, Python 3.6.8
See https://gist.github.com/SebastianAchilles/12bd064b50f82e7172b715e014fd2a71 for a full test report.

SebastianAchilles · 2023-11-16T10:56:23Z

@boegelbot please test @ jsc-zen2

boegelbot · 2023-11-16T11:00:05Z

@SebastianAchilles: Request for testing this PR well received on jsczen2l1.int.jsc-zen2.easybuild-test.cluster

PR test command 'EB_PR=19231 EB_ARGS= EB_REPO=easybuild-easyconfigs /opt/software/slurm/bin/sbatch --mem-per-cpu=4000M --job-name test_PR_19231 --ntasks=8 ~/boegelbot/eb_from_pr_upload_jsc-zen2.sh' executed!

exit code: 0
output:

Submitted batch job 3739

Test results coming soon (I hope)...

Details

- notification for comment with ID 1814215206 processed

Message to humans: this is just bookkeeping information for me,
it is of no use to you (unless you think I have a bug, which I don't).

boegelbot · 2023-11-16T11:21:12Z

Test report by @boegelbot
SUCCESS
Build succeeded for 9 out of 9 (9 easyconfigs in total)
cns1 - Linux Rocky Linux 8.5, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/boegelbot/e265afd108ac0e3a8923eba90b049069 for a full test report.

boegelbot · 2023-11-16T11:29:31Z

Test report by @boegelbot
SUCCESS
Build succeeded for 12 out of 12 (9 easyconfigs in total)
jsczen2c1.int.jsc-zen2.easybuild-test.cluster - Linux Rocky Linux 8.5, x86_64, AMD EPYC 7742 64-Core Processor (zen2), Python 3.6.8
See https://gist.github.com/boegelbot/393e72bf7c3cf343f4813bad88e8bcaa for a full test report.

smoors

lgtm

smoors · 2023-11-16T11:43:11Z

Going in, thanks @Flamefire!

fix possible error/crash in NCCL on x86 due to cpuid

7dbdd50

smoors added the bug fix label Nov 15, 2023

branfosj reviewed Nov 15, 2023

View reviewed changes

Re-add alternative checksum for NCCL-2.18.3-GCCcore-12.3.0-CUDA-12.1.…

ba15c88

…1.eb

Flamefire mentioned this pull request Nov 15, 2023

Fix the checksum type check easybuilders/easybuild-framework#4164

Closed

1 task

SebastianAchilles added this to the next release (4.9.0?) milestone Nov 16, 2023

Revert to using non-dict tuple as checksum

11ad87f

easybuilders deleted a comment from boegelbot Nov 16, 2023

smoors approved these changes Nov 16, 2023

View reviewed changes

smoors merged commit 4adb8d1 into easybuilders:develop Nov 16, 2023

Flamefire deleted the 20231114131104_new_pr_NCCL2103 branch November 16, 2023 12:33

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