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[GPU] Driver installation not working and Dataproc 2.2 cluster creation is failing #1239

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santhoshvly opened this issue Sep 25, 2024 · 21 comments
Open

[GPU] Driver installation not working and Dataproc 2.2 cluster creation is failing #1239

santhoshvly opened this issue Sep 25, 2024 · 21 comments
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@cjac

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@santhoshvly
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Hi,

I am trying to attach GPUs to Dataproc 2.2 cluster, but it is breaking and cluster creation failing. Secure boot is disabled and I am using the latest install_gpu_driver.sh from this repository. I am getting the following error during cluster initialization now:-

++ tr '[:upper:]' '[:lower:]'
++ lsb_release -is

Please let me know if I am missing anything or is there any work around to proceed further?
@cjac
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cjac commented Sep 26, 2024

This is due to apt-key add - deprecation enforcement. The trust databases need to be separated into their own files and referenced by path in the sources.list file for each repo. I have an impementation complete in my rapids branch. I could integrate into master.

https://github.com/cjac/initialization-actions/blob/rapids-20240806/gpu/install_gpu_driver.sh#L1077

Santosh, did you say you've tried this workaround and that it's unblocked you?

@cjac
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cjac commented Sep 26, 2024

Please review and test #1240

@santhoshvly
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@cjac Yes, I tried with the workaround script you mentioned but still breaking with similar error in Dataproc 2.2

-----END PGP PUBLIC KEY BLOCK-----'

sed -i -e 's:deb https:deb [signed-by=/usr/share/keyrings/mysql.gpg] https:g' /etc/apt/sources.list.d/mysql.list
rm -rf /etc/apt/trusted.gpg
main
is_debian
++ os_id
++ cut -d= -f2
++ grep '^ID=' /etc/os-release
++ xargs
[[ debian == \d\e\b\i\a\n ]]
remove_old_backports
is_debian12
is_debian
++ os_id
++ xargs
++ cut -d= -f2
++ grep '^ID=' /etc/os-release
[[ debian == \d\e\b\i\a\n ]]
++ os_version
++ xargs
++ cut -d= -f2
++ grep '^VERSION_ID=' /etc/os-release
[[ 12 == \1\2* ]]
return
is_debian
++ os_id
++ xargs
++ cut -d= -f2
++ grep '^ID=' /etc/os-release
[[ debian == \d\e\b\i\a\n ]]
export DEBIAN_FRONTEND=noninteractive
DEBIAN_FRONTEND=noninteractive
execute_with_retries 'apt-get install -y -qq pciutils linux-headers-6.1.0-25-cloud-amd64'
local -r 'cmd=apt-get install -y -qq pciutils linux-headers-6.1.0-25-cloud-amd64'
(( i = 0 ))
(( i < 3 ))
eval 'apt-get install -y -qq pciutils linux-headers-6.1.0-25-cloud-amd64'
++ apt-get install -y -qq pciutils linux-headers-6.1.0-25-cloud-amd64
E: Error, pkgProblemResolver::Resolve generated breaks, this may be caused by held packages.
sleep 5
(( i++ ))
(( i < 3 ))
eval 'apt-get install -y -qq pciutils linux-headers-6.1.0-25-cloud-amd64'
++ apt-get install -y -qq pciutils linux-headers-6.1.0-25-cloud-amd64
E: Error, pkgProblemResolver::Resolve generated breaks, this may be caused by held packages.
sleep 5
(( i++ ))
(( i < 3 ))
eval 'apt-get install -y -qq pciutils linux-headers-6.1.0-25-cloud-amd64'
++ apt-get install -y -qq pciutils linux-headers-6.1.0-25-cloud-amd64
E: Error, pkgProblemResolver::Resolve generated breaks, this may be caused by held packages.
sleep 5
(( i++ ))
(( i < 3 ))
return 1

@santhoshvly
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santhoshvly commented Sep 26, 2024 •
edited
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@cjac I have disabled secure boot in dataproc. Is that okay or should we enable it for this workaround?

@cjac
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cjac commented Sep 26, 2024

to use secure boot, you'll need to build a custom image. Instructions here:

https://github.com/GoogleCloudDataproc/custom-images/tree/master/examples/secure-boot

You do not need secure boot enabled for the workaround to function. I think you may just be missing an apt-get update after the sources.list files are cleaned up and the trust keys are written to /usr/share/keyrings

@cjac
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cjac commented Sep 26, 2024

package cache update command included in #1240 as commit 234515d

@santhoshvly
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@cjac I tried with that but still breaking with same error

@cjac
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cjac commented Sep 26, 2024

I forgot that I'm pinned to 2.2.20-debian12

I'll try to make it work with the latest from the 2.2 line.

@santhoshvly
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Okay, Thank you. I am getting the error in, 2.2.32-debian12.

@cjac
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cjac commented Sep 26, 2024 •
edited
Loading

this might do it:

if is_debian ; then
  clean_up_sources_lists
  apt-get update
  export DEBIAN_FRONTEND="noninteractive"
  echo "Begin full upgrade"
  date
  apt-get --yes -qq -o Dpkg::Options::="--force-confdef" -o Dpkg::Options::="--force-confold" full-upgrade

  date
  echo "End full upgrade"
  pkgs="$(apt-get -y full-upgrade 2>&1 | grep -A9 'The following packages have been kept back:' | grep '^ ')"
  apt-get install -y --allow-change-held-packages -qq ${pkgs}
fi

@cjac
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cjac commented Sep 26, 2024

yes, that last iteration does seem to get the installer working for me on 2.2 latest

@santhoshvly
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@cjac Thank you. I tried with the above changes but the cluster creation still failed. It didn't give the previous package installation error and looks good in init script logs, last few lines of install_gpu_dirver.sh script below:-

pdate-alternatives: using /usr/lib/mesa-diverted to provide /usr/lib/glx (glx) in auto mode
Processing triggers for initramfs-tools (0.142+deb12u1) ...
update-initramfs: Generating /boot/initrd.img-6.1.0-25-cloud-amd64
Processing triggers for libc-bin (2.36-9+deb12u8) ...
Processing triggers for man-db (2.11.2-2) ...
Processing triggers for glx-alternative-mesa (1.2.2) ...
update-alternatives: updating alternative /usr/lib/mesa-diverted because link group glx has changed slave links
Setting up glx-alternative-nvidia (1.2.2) ...
Processing triggers for glx-alternative-nvidia (1.2.2) ...
Setting up nvidia-alternative (550.54.14-1) ...
Processing triggers for nvidia-alternative (550.54.14-1) ...
update-alternatives: using /usr/lib/nvidia/current to provide /usr/lib/nvidia/nvidia (nvidia) in auto mode
Setting up nvidia-kernel-support (550.54.14-1) ...
Setting up libnvidia-ml1:amd64 (550.54.14-1) ...
Setting up nvidia-smi (550.54.14-1) ...
Processing triggers for nvidia-alternative (550.54.14-1) ...
update-alternatives: updating alternative /usr/lib/nvidia/current because link group nvidia has changed slave links
Setting up nvidia-kernel-open-dkms (550.54.14-1) ...
Loading new nvidia-current-550.54.14 DKMS files...
Building for 6.1.0-25-cloud-amd64
Building initial module for 6.1.0-25-cloud-amd64

I am seeing the following error in Dataproc logs:-

DEFAULT 2024-09-27T02:58:49.624652770Z Setting up xserver-xorg-video-nvidia (560.35.03-1) ...
DEFAULT 2024-09-27T02:58:49.807012159Z Redundant argument in sprintf at /usr/share/perl5/Debconf/Element/Noninteractive/Error.pm line 54, line 9.
DEFAULT 2024-09-27T02:58:49.861225948Z Configuring xserver-xorg-video-nvidia
DEFAULT 2024-09-27T02:58:49.861229190Z -------------------------------------
DEFAULT 2024-09-27T02:58:49.861229697Z
DEFAULT 2024-09-27T02:58:49.861230128Z Mismatching nvidia kernel module loaded
DEFAULT 2024-09-27T02:58:49.861230920Z
DEFAULT 2024-09-27T02:58:49.861231625Z The NVIDIA driver that is being installed (version 560.35.03) does not
DEFAULT 2024-09-27T02:58:49.861232509Z match the nvidia kernel module currently loaded (version for).
DEFAULT 2024-09-27T02:58:49.861233023Z
DEFAULT 2024-09-27T02:58:49.861233385Z The X server, OpenGL, and GPGPU applications may not work properly.
DEFAULT 2024-09-27T02:58:49.861233726Z
DEFAULT 2024-09-27T02:58:49.861234284Z The easiest way to fix this is to reboot the machine once the installation
DEFAULT 2024-09-27T02:58:49.861235078Z has finished. You can also stop the X server (usually by stopping the login
DEFAULT 2024-09-27T02:58:49.861235792Z manager, e.g. gdm3, sddm, or xdm), manually unload the module ("modprobe -r
DEFAULT 2024-09-27T02:58:49.861236740Z nvidia"), and restart the X server.

I think this error caused the cluster creation failure.

@santhoshvly
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@cjac We are unable to create dataproc GPU cluster since Dataproc 2.1/2/2 upgrade . Please let me know if there are any workaround to proceed with cluster creation.

@cjac
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cjac commented Sep 27, 2024

I did publish another version since last we spoke. Can you please review the code at https://github.com/GoogleCloudDataproc/initialization-actions/pull/1240/files please? The tests passed last commit but took 2 hours and one minute to complete. This latest update should reduce the runtime significantly.

@cjac
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cjac commented Sep 28, 2024

I received those messages as well, but they should just be warnings. Does the new change get things working?

@santhoshvly
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santhoshvly commented Sep 30, 2024 •
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@cjac I tried the latest script but dataproc initialization action is breaking with timeout error and cluster is not starting:-

name: "gs://syn-development-kub/syn-cluster-config/install_gpu_driver.sh"
type: INIT_ACTION
state: FAILED
start_time {
seconds: 1727708007
nanos: 938000000
}
end_time {
seconds: 1727708408
nanos: 209000000
}
error_detail: "Initialization action timed out. Failed action 'gs://syn-development-kub/syn-cluster-config/install_gpu_driver.sh', see output in: gs://syn-development-kub/google-cloud-dataproc-metainfo/20d0767a-6c0a-4eea-a0de-6ba1cc16207a/dataproc-22-gpu-test-691fd61a-a3ec9b72-w-0/dataproc-initialization-script-0_output"
error_code: TASK_FAILED

I couldn't find any error details in the init script output. I am attaching the init script output for your reference.
google-cloud-dataproc-metainfo_20d0767a-6c0a-4eea-a0de-6ba1cc16207a_dataproc-22-gpu-test-691fd61a-a3ec9b72-w-0_dataproc-initialization-script-0_output.txt

@cjac
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cjac commented Sep 30, 2024

Can you increase your timeout by 5-10 minutes? I do have a fix that's in the works for the base image, and once it gets published, we should be able to skip the full upgrade in the init action.

@cjac
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cjac commented Sep 30, 2024

Here is a recent cluster build I did in my repro lab. It took 14m47.946s:

Fri Sep 27 04:49:21 PM PDT 2024
+ gcloud dataproc clusters create cluster-1718310842 --master-boot-disk-type pd-ssd --worker-boot-disk-type pd-ssd --secondary-worker-boot-disk-type pd-ssd --num-masters=1 --num-workers=2 --master-boot-disk-size 100 --worker-boot-disk-size 100 --secondary-worker-boot-disk-size 50 --master-machine-type n1-standard-16 --worker-machine-type n1-standard-16 --master-accelerator type=nvidia-tesla-t4 --worker-accelerator type=nvidia-tesla-t4 --region us-west4 --zone us-west4-a --subnet subnet-cluster-1718310842 --no-address --service-account=sa-cluster-1718310842@cjac-2021-00.iam.gserviceaccount.com --tags=tag-cluster-1718310842 --bucket cjac-dataproc-repro-1718310842 --enable-component-gateway --metadata install-gpu-agent=true --metadata gpu-driver-provider=NVIDIA --metadata public_secret_name=efi-db-pub-key-042 --metadata private_secret_name=efi-db-priv-key-042 --metadata secret_project=cjac-2021-00 --metadata secret_version=1 --metadata modulus_md5sum=d41d8cd98f00b204e9800998ecf8427e --metadata dask-runtime=yarn --metadata bigtable-instance=cjac-bigtable0 --metadata rapids-runtime=SPARK --initialization-actions gs://cjac-dataproc-repro-1718310842/dataproc-initialization-actions/gpu/install_gpu_driver.sh,gs://cjac-dataproc-repro-1718310842/dataproc-initialization-actions/dask/dask.sh,gs://cjac-dataproc-repro-1718310842/dataproc-initialization-actions/rapids/rapids.sh --initialization-action-timeout=90m --metadata bigtable-instance=cjac-bigtable0 --no-shielded-secure-boot --image-version 2.2 --max-idle=8h --scopes https://www.googleapis.com/auth/cloud-platform,sql-admin
Waiting on operation [projects/cjac-2021-00/regions/us-west4/operations/094ca004-2e9f-32f6-94e1-53c8f6799624].
Waiting for cluster creation operation...⠛
WARNING: Consider using Auto Zone rather than selecting a zone manually. See https://cloud.google.com/dataproc/docs/concepts/configuring-clusters/auto-zone
Waiting for cluster creation operation...done.
Created [https://dataproc.googleapis.com/v1/projects/cjac-2021-00/regions/us-west4/clusters/cluster-1718310842] Cluster placed in zone [us-west4-a].

real    14m47.946s
user    0m4.854s
sys     0m0.426s
+ date
Fri Sep 27 05:04:09 PM PDT 2024

@cjac cjac self-assigned this Sep 30, 2024
@cjac
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cjac commented Sep 30, 2024

I see that I hard-coded a regional bucket path into the code. this will slow things down when running outside of us-west4 ; I'll fix that next.

@santhoshvly
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@cjac Adding timeout fixed the error and created cluster. We are able to run GPU workloads in the cluster. Thank you so much for the support!!.

@cjac
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cjac commented Oct 1, 2024

Glad I could help!

I'll work on getting these changes integrated into the base image.

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