PytorchExamples

Set Up Romeo (RHEL7) For Pytorch Parallel Compatibility

module load anaconda
module load cuda/10.0
module load cudnn/10.0-v7.4.1
module load gcc/6.4.0
export CUDNN_INCLUDE_DIR=/opt/cudnn-10.0-linux-x64-v7.4.1/cuda/include
export CUDNN_LIB_DIR=/opt/cudnn-10.0-linux-x64-v7.4.1/cuda/lib64
conda create -n py36 python=3.6
source activate py36
export CMAKE_PREFIX_PATH="$(dirname $(which conda))/../"
export CMAKE_PREFIX_PATH="/opt/gcc-6.4.0;$CMAKE_PREFIX_PATH"
conda install -c anaconda libgcc-ng libstdcxx-ng
conda install -c conda-forge openmpi
conda install numpy ninja pyyaml mkl setuptools cmake cffi
conda install -c pytorch magma-cuda100
conda install -c mingfeima mkldnn
conda uninstall --force mkl
pip install mkl
pip install mkl_include
conda uninstall --force cmake
pip install cmake
chmod +x ~/.conda/envs/py36/lib/python3.6/site-packages/cmake/data/bin/*
git clone --recursive https://github.com/pytorch/pytorch
cd pytorch/
BUILD_TEST=0 python setup.py install

Credits

Allan Streib of Future Systems, Indiana University Bloomington designed the set up.

Setting Up RHEL7 (Romeo r-003)

module load anaconda
module load cuda/10.0
module load cudnn/10.0-v7.4.1
module load gcc/6.4.0
export CUDNN_INCLUDE_DIR=/opt/cudnn-10.0-linux-x64-v7.4.1/cuda/include
export CUDNN_LIB_DIR=/opt/cudnn-10.0-linux-x64-v7.4.1/cuda/lib64

Note

Private Note: This is for running in r-003 RHEL7

source activate ENV1

Running Examples

RHEL7 Compatible

mpirun -n <parallelism> python3 mnist/mnist_dist_rhel7.py

PyTorch with Horovod & MPI

Install

conda create -n ENVTORCHHVD python=3.7
conda activate ENVTORCHHVD
pip install torchvision
HOROVOD_WITH_MPI=1 HOROVOD_WITH_PYTORCH=1 pip install horovod[pytorch]

Example Code

import argparse
import torch.multiprocessing as mp
import torch.nn as nn
import torch.nn.functional as F
import torch.optim as optim
from torchvision import datasets, transforms
import torch.utils.data.distributed
import horovod.torch as hvd

# Training settings
parser = argparse.ArgumentParser(description='PyTorch MNIST Example')
parser.add_argument('--batch-size', type=int, default=64, metavar='N',
                    help='input batch size for training (default: 64)')
parser.add_argument('--test-batch-size', type=int, default=1000, metavar='N',
                    help='input batch size for testing (default: 1000)')
parser.add_argument('--epochs', type=int, default=10, metavar='N',
                    help='number of epochs to train (default: 10)')
parser.add_argument('--lr', type=float, default=0.01, metavar='LR',
                    help='learning rate (default: 0.01)')
parser.add_argument('--momentum', type=float, default=0.5, metavar='M',
                    help='SGD momentum (default: 0.5)')
parser.add_argument('--no-cuda', action='store_true', default=False,
                    help='disables CUDA training')
parser.add_argument('--seed', type=int, default=42, metavar='S',
                    help='random seed (default: 42)')
parser.add_argument('--log-interval', type=int, default=10, metavar='N',
                    help='how many batches to wait before logging training status')
parser.add_argument('--fp16-allreduce', action='store_true', default=False,
                    help='use fp16 compression during allreduce')
parser.add_argument('--use-adasum', action='store_true', default=False,
                    help='use adasum algorithm to do reduction')


class Net(nn.Module):
    def __init__(self):
        super(Net, self).__init__()
        self.conv1 = nn.Conv2d(1, 10, kernel_size=5)
        self.conv2 = nn.Conv2d(10, 20, kernel_size=5)
        self.conv2_drop = nn.Dropout2d()
        self.fc1 = nn.Linear(320, 50)
        self.fc2 = nn.Linear(50, 10)

    def forward(self, x):
        x = F.relu(F.max_pool2d(self.conv1(x), 2))
        x = F.relu(F.max_pool2d(self.conv2_drop(self.conv2(x)), 2))
        x = x.view(-1, 320)
        x = F.relu(self.fc1(x))
        x = F.dropout(x, training=self.training)
        x = self.fc2(x)
        return F.log_softmax(x)


def train(epoch):
    model.train()
    # Horovod: set epoch to sampler for shuffling.
    train_sampler.set_epoch(epoch)
    for batch_idx, (data, target) in enumerate(train_loader):
        if args.cuda:
            data, target = data.cuda(), target.cuda()
        optimizer.zero_grad()
        output = model(data)
        loss = F.nll_loss(output, target)
        loss.backward()
        optimizer.step()
        if batch_idx % args.log_interval == 0:
            # Horovod: use train_sampler to determine the number of examples in
            # this worker's partition.
            print('Train Epoch: {} [{}/{} ({:.0f}%)]\tLoss: {:.6f}'.format(
                epoch, batch_idx * len(data), len(train_sampler),
                100. * batch_idx / len(train_loader), loss.item()))


def metric_average(val, name):
    tensor = torch.tensor(val)
    avg_tensor = hvd.allreduce(tensor, name=name)
    return avg_tensor.item()


def test():
    model.eval()
    test_loss = 0.
    test_accuracy = 0.
    for data, target in test_loader:
        if args.cuda:
            data, target = data.cuda(), target.cuda()
        output = model(data)
        # sum up batch loss
        test_loss += F.nll_loss(output, target, size_average=False).item()
        # get the index of the max log-probability
        pred = output.data.max(1, keepdim=True)[1]
        test_accuracy += pred.eq(target.data.view_as(pred)).cpu().float().sum()

    # Horovod: use test_sampler to determine the number of examples in
    # this worker's partition.
    test_loss /= len(test_sampler)
    test_accuracy /= len(test_sampler)

    # Horovod: average metric values across workers.
    test_loss = metric_average(test_loss, 'avg_loss')
    test_accuracy = metric_average(test_accuracy, 'avg_accuracy')

    # Horovod: print output only on first rank.
    if hvd.rank() == 0:
        print('\nTest set: Average loss: {:.4f}, Accuracy: {:.2f}%\n'.format(
            test_loss, 100. * test_accuracy))


if __name__ == '__main__':
    args = parser.parse_args()
    args.cuda = not args.no_cuda and torch.cuda.is_available()

    # Horovod: initialize library.
    hvd.init()
    torch.manual_seed(args.seed)

    if args.cuda:
        # Horovod: pin GPU to local rank.
        torch.cuda.set_device(hvd.local_rank())
        torch.cuda.manual_seed(args.seed)


    # Horovod: limit # of CPU threads to be used per worker.
    torch.set_num_threads(1)

    kwargs = {'num_workers': 1, 'pin_memory': True} if args.cuda else {}
    # When supported, use 'forkserver' to spawn dataloader workers instead of 'fork' to prevent
    # issues with Infiniband implementations that are not fork-safe
    if (kwargs.get('num_workers', 0) > 0 and hasattr(mp, '_supports_context') and
            mp._supports_context and 'forkserver' in mp.get_all_start_methods()):
        kwargs['multiprocessing_context'] = 'forkserver'

    train_dataset = \
        datasets.MNIST('data-%d' % hvd.rank(), train=True, download=True,
                       transform=transforms.Compose([
                           transforms.ToTensor(),
                           transforms.Normalize((0.1307,), (0.3081,))
                       ]))
    # Horovod: use DistributedSampler to partition the training data.
    train_sampler = torch.utils.data.distributed.DistributedSampler(
        train_dataset, num_replicas=hvd.size(), rank=hvd.rank())
    train_loader = torch.utils.data.DataLoader(
        train_dataset, batch_size=args.batch_size, sampler=train_sampler, **kwargs)

    test_dataset = \
        datasets.MNIST('data-%d' % hvd.rank(), train=False, transform=transforms.Compose([
            transforms.ToTensor(),
            transforms.Normalize((0.1307,), (0.3081,))
        ]))
    # Horovod: use DistributedSampler to partition the test data.
    test_sampler = torch.utils.data.distributed.DistributedSampler(
        test_dataset, num_replicas=hvd.size(), rank=hvd.rank())
    test_loader = torch.utils.data.DataLoader(test_dataset, batch_size=args.test_batch_size,
                                              sampler=test_sampler, **kwargs)

    model = Net()

    # By default, Adasum doesn't need scaling up learning rate.
    lr_scaler = hvd.size() if not args.use_adasum else 1

    if args.cuda:
        # Move model to GPU.
        model.cuda()
        # If using GPU Adasum allreduce, scale learning rate by local_size.
        if args.use_adasum and hvd.nccl_built():
            lr_scaler = hvd.local_size()

    # Horovod: scale learning rate by lr_scaler.
    optimizer = optim.SGD(model.parameters(), lr=args.lr * lr_scaler,
                          momentum=args.momentum)

    # Horovod: broadcast parameters & optimizer state.
    hvd.broadcast_parameters(model.state_dict(), root_rank=0)
    hvd.broadcast_optimizer_state(optimizer, root_rank=0)

    # Horovod: (optional) compression algorithm.
    compression = hvd.Compression.fp16 if args.fp16_allreduce else hvd.Compression.none

    # Horovod: wrap optimizer with DistributedOptimizer.
    optimizer = hvd.DistributedOptimizer(optimizer,
                                         named_parameters=model.named_parameters(),
                                         compression=compression,
                                         op=hvd.Adasum if args.use_adasum else hvd.Average)

    for epoch in range(1, args.epochs + 1):
        train(epoch)
        test()

Run

horovodrun --mpi -np 4 python3 pytorch_mnist.py

OPENMPI Configs for IB

export OMPI_MCA_btl_openib_allow_ib=1
export OMPI_MCA_btl_openib_if_include="mlx4_0:1"