neural-fortran

A parallel framework for deep learning. Read the paper here.

• Features
• Getting started
  • Building with fpm
  • Building with CMake
• Examples
• API documentation
• Acknowledgement
• Related projects

Features

• Training and inference of dense (fully connected) and convolutional neural networks
• Loading dense and convolutional models from Keras HDF5 (.h5) files
• Stochastic and mini-batch gradient descent for back-propagation
• Data-based parallelism
• Several activation functions and their derivatives

Available layers

Layer type	Constructor name	Supported input layers	Rank of output array	Forward pass	Backward pass
Input	input	n/a	1, 3	n/a	n/a
Dense (fully-connected)	dense	input1d, flatten	1	✅	✅
Convolutional (2-d)	conv2d	input3d, conv2d, maxpool2d, reshape	3	✅	✅
Max-pooling (2-d)	maxpool2d	input3d, conv2d, maxpool2d, reshape	3	✅	✅
Flatten	flatten	input3d, conv2d, maxpool2d, reshape	1	✅	✅
Reshape (1-d to 3-d)	reshape	input1d, dense, flatten	3	✅	✅

Getting started

Get the code:

git clone https://github.com/modern-fortran/neural-fortran
cd neural-fortran

Dependencies

Required dependencies are:

• A Fortran compiler
• HDF5 (must be provided by the OS package manager or your own build from source)
• functional-fortran, h5fortran, json-fortran (all handled by neural-fortran's build systems, no need for a manual install)
• fpm or CMake for building the code

Optional dependencies are:

• OpenCoarrays (for parallel execution with GFortran)
• BLAS, MKL, or similar (for offloading matmul and dot_product calls)
• curl (for downloading testing and example datasets)

Compilers tested include:

• gfortran-9.4.0
• ifort-2021.4
• ifx-2021.4

Building with fpm

Building in serial mode

With gfortran, the following will create an optimized build of neural-fortran:

fpm build \
  --profile release \
  --flag "-fno-frontend-optimize -I$HDF5INC -L$HDF5LIB"

HDF5 is now a required dependency, so you have to provide it to fpm. The above command assumes that the HDF5INC and HDF5LIB environment variables are set to the include and library paths, respectively, of your HDF5 install. The -fno-frontend-optimize disables some optimizations that may be harmful when building neural-fortran.

Building in parallel mode

If you use GFortran and want to run neural-fortran in parallel, you must first install OpenCoarrays. Once installed, use the compiler wrappers caf and cafrun to build and execute in parallel, respectively:

fpm build \
  --compiler caf \
  --profile release \
  --flag "-fno-frontend-optimize -I$HDF5INC -L$HDF5LIB"

Testing with fpm

fpm test \
  --profile release \
  --flag "-fno-frontend-optimize -I$HDF5INC -L$HDF5LIB"

For the time being, you need to specify the same compiler flags to fpm test as you did in fpm build so that fpm knows it should use the same build profile.

See Fortran Package Manager for more info on fpm.

Building with CMake

Building in serial mode

mkdir build
cd build
cmake .. -DSERIAL=1
make

Tests and examples will be built in the bin/ directory.

Building in parallel mode

If you use GFortran and want to run neural-fortran in parallel, you must first install OpenCoarrays. Once installed, use the compiler wrappers caf and cafrun to build and execute in parallel, respectively:

FC=caf cmake ..
make
cafrun -n 4 bin/mnist # run MNIST example on 4 cores

Building with a different compiler

If you want to build with a different compiler, such as Intel Fortran, set the HDF5_ROOT environment variable to the root path of your Intel HDF5 build, and specify FC when issuing cmake:

FC=ifort cmake ..

for a parallel build of neural-fortran, or

FC=ifort cmake .. -DSERIAL=1

for a serial build.

Building with BLAS or MKL

To use an external BLAS or MKL library for matmul calls, run cmake like this:

cmake .. -DBLAS=-lblas

where the value of -DBLAS should point to the desired BLAS implementation, which has to be available in the linking path. This option is currently available only with gfortran.

Building in debug mode

To build with debugging flags enabled, type:

cmake .. -DCMAKE_BUILD_TYPE=debug

Running tests with CMake

Type:

ctest

to run the tests.

Examples

The easiest way to get a sense of how to use neural-fortran is to look at examples, in increasing level of complexity:

1. simple: Approximating a simple, constant data relationship
2. sine: Approximating a sine function
3. dense_mnist: Hand-written digit recognition (MNIST dataset) using a dense (fully-connected) network
4. cnn_mnist: Training a CNN on the MNIST dataset
5. dense_from_keras: Creating a pre-trained dense model from a Keras HDF5 file and running the inference.
6. cnn_from_keras: Creating a pre-trained convolutional model from a Keras HDF5 file and running the inference.
7. get_set_network_params: Getting and setting hyperparameters of a network.

The examples also show you the extent of the public API that's meant to be used in applications, i.e. anything from the nf module.

Examples 3-6 rely on curl to download the needed datasets, so make sure you have it installed on your system. Most Linux OSs have it out of the box. The dataset will be downloaded only the first time you run the example in any given directory.

If you're using Windows OS or don't have curl for any other reason, download mnist.tar.gz directly and unpack in the directory in which you will run the example program.

API documentation

API documentation can be generated with FORD. Assuming you have FORD installed on your system, run

ford ford.md

from the neural-fortran top-level directory to generate the API documentation in doc/html. Point your browser to doc/html/index.html to read it.

Acknowledgement

Thanks to all open-source contributors to neural-fortran: @awvwgk, @ivan-pi, @jacobwilliams, @jvdp1, @jvo203, @milancurcic, @pirpyn, @rouson, @rweed, and @scivision.

Development of convolutional networks and Keras HDF5 adapters in neural-fortran was funded by a contract from NASA Goddard Space Flight Center to the University of Miami.

Related projects

• Fortran Keras Bridge (FKB) by Jordan Ott provides a Python bridge between old (v0.1.0) neural-fortran style save files and Keras's HDF5 models. As of v0.9.0, neural-fortran implements the full feature set of FKB in pure Fortran, and in addition supports training and inference of convolutional networks.
• rte-rrtmgp-nn by Peter Ukkonen is an implementation based on old (v0.1.0) neural-fortran which optimizes for speed and running on GPUs the memory layout and forward and backward passes of dense layers.