High-Performance Multi-Node Cluster Deployment Guide
- Slurm Perf Cluster
This guide utilizes a collection of playbooks to configure a cluster, deploy a workload manager, and verify performance.
It leverages open source tools such as Pyxis and Enroot to optimize Slurm for multi-node Deep Learning jobs beyond the cluster configuration described in the DeepOps Slurm Deployment Guide. Additional details can be found here.
These packages have been installed and tested with the following Linux distributions and hardware platforms:
- NVIDIA DGX OS 4.4 or greater
- DGX A100
- Non-blocking InfiniBand switches with the DGX A100s configured in InfiniBand mode.
- Persistent network storage with RAID cache configured on DGX A100s
- 1 or more DGX servers (Worker nodes)
- 1 Server or laptop (Ansible provisioning machine)
- 1 Server or VM (Login node & Slurm controller)
- 1 or more NFS Servers (Could be the login node or one of the workers)
- Optional, 1 Server or VM (PXE provisioning machine)
- Internet access
- An ssh user that can be used to execute Slurm jobs, has sudo access, and can login to all hosts
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Install a supported operating system on all nodes.
Install a supported operating system on all servers utilizing the DGXie provisioning container, via a 3rd-party solution (i.e. MAAS, Foreman), or server BMC/console.
NOTE: During OS installation, it is ideal if the identical user/password is configured. Otherwise, follow step 4 below to create an identical user across all nodes in the cluster.
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Set up your provisioning machine.
Install Ansible and required software on the provisioning machine.
DeepOps uses a single provisioning machine to deploy all other software to the cluster. This process may take several minutes as ansible-galaxy roles are downloaded and python packages are installed. For more information on Ansible and why we use it, consult the Ansible Guide.
# Install software prerequisites and copy default configuration # Copies ./config.example to ./config, if none exists ./scripts/setup.sh
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Edit the Ansible inventory
Edit the Ansible inventory file and verify connectivity to all nodes.
Ansible uses an inventory which outlines the servers in the cluster and a set of group variables which playbooks use to customize deployment. Running
./scripts/setup.shin the previous step should have created theconfigdirectory.# Modify the Ansible inventory file # Especially the `all` and `slurm` sections vi config/inventory
NOTE: Be warned that
/etc/hostnameand/etc/hostson each host will be modified to the name(s) specified in the inventory file, so it is best to use the actual names of the hosts.When modifying the inventory, if the hosts are not accessible from the provisioning node by their hostname, supply an
ansible_host. For example:# in config/inventory... [all] login-node ansible_host_192.168.2.100 worker-node-01 ansible_host=192.168.2.1 worker-node-02 ansible_host=192.168.2.2 ... [slurm-master] login-node [slurm-node] worker-node-01 worker-node-02 -
Add or modify user(s) across cluster
The ansible scripts assume a consistent user which has access to all nodes in the cluster.
Note: If a user with the same username, uid, and password exists on each node, skip this step. It is critical for the user to exist with the same uid across all nodes.
# The default user is `nvidia` with password `deepops` # Modify this user/password as desired vi config/group_vars/all.yml
Run the users playbook to create/modify the user across all nodes.
# NOTE: If SSH requires a password, add: `-k` # NOTE: If sudo on remote machine requires a password, add: `-K` # NOTE: If SSH user is different than current user, add: `-u <user>` ansible-playbook -b playbooks/generic/users.yml
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Verify the configuration
ansible all -m raw -a "hostname" -
Edit the NFS configuration
Update the NFS configuration.
DeepOps configures NFS for sharing data and models across the cluster of nodes. NFS, or some sort of shared storage is important for multi-node deployments so that training data is accessible from all nodes.
# Comment in the `nfs_exports` and `nfs_mounts` sections of `config/group_vars/all.yml` # Modify configuration as necessary to fit the environment, or just use the defaults vi config/group_vars/all.yml
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Configure NFS across your cluster
Run the nfs playbooks.
Note: This step can be skipped if NFS is already configured
# NOTE: If SSH user is different than current user, add: `-u <user>` # create the NFS server (if not using an existing NFS server) ansible-playbook playbooks/generic/nfs-server.yml # mount the NFS shares to the clients ansible-playbook playbooks/generic/nfs-client.yml
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Deploy optimized Slurm software using Ansible
Run the cluster playbook.
The
slurm-cluster.ymlplaybook bootstraps the cluster, configures NFS, builds slurm & dependencies, and installs it. With the additional variablesslurm_install_enrootandslurm_install_pyxis, it also installs enroot and pyxis.# NOTE: If SSH user is different than current user, add: `-u <user>` ansible-playbook playbooks/slurm-cluster.yml -e "slurm_install_enroot=true slurm_install_pyxis=true"
The slurm-validation.yml playbook connects to the login node and executes
the NCCL tests against all nodes and GPUs. Refer to
"Slurm Validation" for details on running
the playbook. This checks both the correctness and the performance of the
cluster. For a full explanation of what these tests do and what the
results mean
see the official
NCCL Tests documentation.
# Verify Slurm connectivity across all nodes
ansible-playbook playbooks/slurm-cluster/slurm-validation.ymlIf the test is successful you should expect to see output similar to that below (run on a cluster of 4x DGX A100 nodes):
#
# out-of-place in-place
# size count type redop time algbw busbw error time algbw busbw error
# (B) (elements) (us) (GB/s) (GB/s) (us) (GB/s) (GB/s)
1048576 262144 float sum 135.3 7.75 15.02 7e-07 132.7 7.90 15.31 7e-07
2097152 524288 float sum 161.5 12.98 25.15 7e-07 161.3 13.00 25.18 7e-07
4194304 1048576 float sum 228.7 18.34 35.53 7e-07 226.9 18.48 35.81 7e-07
8388608 2097152 float sum 320.3 26.19 50.75 1e-06 313.7 26.74 51.80 1e-06
16777216 4194304 float sum 381.0 44.04 85.32 1e-06 381.6 43.97 85.19 1e-06
33554432 8388608 float sum 586.2 57.24 110.90 1e-06 581.3 57.72 111.84 1e-06
67108864 16777216 float sum 1079.5 62.16 120.44 1e-06 1080.6 62.11 120.33 1e-06
134217728 33554432 float sum 2281.2 58.84 114.00 1e-06 2137.8 62.78 121.64 1e-06
268435456 67108864 float sum 3083.1 87.07 168.69 1e-06 3129.9 85.76 166.17 1e-06
536870912 134217728 float sum 5657.1 94.90 183.87 1e-06 6000.6 89.47 173.35 1e-06
1073741824 268435456 float sum 11643 92.23 178.69 1e-06 11069 97.00 187.94 1e-06
2147483648 536870912 float sum 21874 98.18 190.22 1e-06 21929 97.93 189.74 1e-06
4294967296 1073741824 float sum 43557 98.61 191.05 1e-06 43440 98.87 191.56 1e-06
# Out of bounds values : 0 OK
# Avg bus bandwidth : 113.289
#Note: These results validate connectivity and do not necessarily indicate optimal performance. The avg bus bandwidth does not matter much - pay attention to the
out-of-place busbw. DGX A100 has 8x ConnectX-6 Mellanox InfiniBand cards to maintain consistency with internal NVSwitch/NVLink bandwidth. Maximal transfer rates can be close to 200 GB/s. The example above has an out-of-place busbw of 191.05 GB/s, which is in line with what we would expect for DGX A100 nodes networked with InfiniBand. For more background, see the following blog post.
The Slurm cluster is now configured to run high-performance multi-node Deep Learning training jobs.
For cluster usage review the official Slurm documentation.
For examples of how to run BERT multi-node training jobs using this configuration, consult the Multi-Node BERT User Guide.
DeepOps requires Ansible v2.7.8 or greater. If the setup.sh script fails to achieve this, the latest version of ansible can be installed via pip...
# on the provisioning node
sudo pip install ansible=="2.7.11"By default, fail2ban is running on NVIDIA DGX-1 and DGX-2 servers. Stopping fail2ban during deployment can facilitate setup...
# on each dgx node
sudo systemctl stop fail2banThe last step of the deployment runs a validation test across all nodes and GPUs in the cluster. If this test appears to hang for longer than a few minutes or timeouts completely, it is helpful to diagnose issues that might be occurring directly from the slurm login node...
# on the slurm login node
# show running processes
sinfo
# show potential issues
sinfo -RIf errors are noticed when running sinfo -R, it's also helpful to search the logs for errors on the offending worker node(s)...
# on the offending worker node(s)
sudo journalctl -e | grep slurmTo re-run the test manually, from the slurm login node...
# on the slurm login node
# look up the running job
squeue
# cancel it
scancel <job_id>
# reset the node states
sudo scontrol update nodename=<node_names> state=idle
# run the test again
srun -N <num_nodes> --mpi=pmix --exclusive --container-image=deepops/nccl-tests-tf20.06-ubuntu18.04 --ntasks-per-node=8 -G <num_nodes x num_gpus_per_node> all_reduce_perf -b 1M -e 4G -f 2 -g <num_gpus_per_node>If the validation test runs, but results are suboptimal, there are many factors that could affect this. Besides hardware and cabling issues, ensure the following...
# nv_peer_mem should be running
$ lsmod | grep nv
nv_peer_mem 16384 0
# if it isn't, run the following command on each node
$ sudo modprobe nv_peer_memTry running the test from the slurm login node, but with debug output enabled...
# from the slurm login node
$ NCCL_DEBUG=INFO srun -N <num_nodes> --mpi=pmix --exclusive --container-image=deepops/nccl-tests-tf20.06-ubuntu18.04 --ntasks-per-node=8 -G <num_nodes x num_gpus_per_node> all_reduce_perf -b 1M -e 4G -f 2 -g <num_gpus_per_node>
# examine the output, looking for any mention of `GDRDMA`
# for example: `NET/IB/0/GDRDMA`
# if this is not in the output, it is likely that something is misconfigured in the software
# if this is in the output, and performance is still low, it is likely that this is a hardware issue