RMA

RMA is a solver to find an axis-parallel box containing the maximum net weight of positivly minus negativly covered observations or vice versa when each observation has a positive or negative weight.

Software Requirement:

You need to install

• CMake (version >= 3.0)
• C++ compiler (g++)
• OpenMPI 2.1.1 (openmpi-bin, libopenmpi-dev)

The following packages are installed by running scripts/build.sh as described below

• PEBBL

Note

• The build was tested on Ubuntu 18.04 (Bionic) as shown in our TravisCI file

The description and user guide of RMA

• Presentation
• User Guide

How to clone and build PEBBL and RMA

• Recursive clone the RMA repository (PEBBL is a submodule in this repository)

git clone --recursive https://github.com/aik7/RMA.git

• Build RMA with PEBBL (Note: assuming that all commands are executed in the RMA main directory)

sh scripts/build.sh

• If you want to build RMA and PEBBL with the debug mode

sh scripts/build.sh -d true

Example commands to run RMA:

Serial implementation

./build/rma <data_filename>

Parallel implementation

mpirun -np 4 ./build/rma <data_filename>

Example script

sh scripts/driver.sh  # at the RMA root directory

Parameters

parameters	description	data type	range	default value
isPebblRMA	whether or not to solve RMA using PEBBL	bool	true or false	true
isGreedyRMA	whether or not to solve RMA using the greedy method	bool	true or false	true
isInitGuess	whether or not to set the PEBBL's initial solution as the greedy RMA solution	bool	true or false	true
fracCachedCutPts	the threshold of cached cutpoints caching which is the fraction of the total cutpoints	double	[0, infinity)	0
isMinMaxGreedy	whether or not to solve the greedy RMA by min-then-max order; if false, it will solve the greedy RMA by max-then-min order	bool	true or false	true
isPrintBBdetails	whether or not to print out the PEBBL's branch and bound information	bool	true or false	false
nonUniformWt	if you set a non-uniform weight file for a given dataset, the code solves the RMA problem using the weight	string		""
delta	it is a factor of the epsilon integerization method	double		0.005

Class Diagram

• A solid arrow indicates an inheritance relationship
• A dashed arrow indicates a composition relationship

Source files at src directory

├── argRMA.cpp       : a file contains RMA argument class
├── argRMA.h
├── baseRMA.cpp      : a file contains a base class for a SolveRMA class
├── baseRMA.h
├── dataRMA.cpp      : a file contains RMA data classes
├── dataRMA.h
├── driver.cpp       : a driver file
├── greedyRMA.cpp    : a file contains greedy RMA class
├── greedyRMA.h
├── parRMA.cpp       : a file contains parallel RMA class
├── parRMA.h
├── serRMA.cpp       : a file contains serial RMA class
├── serRMA.h
├── Time.h           : a header file for time
├── solveRMA.cpp     : a file contains SolveRMA class
├── solveRMA.h
├── utility.cpp      : a file contains RMA utility functions
└── utility.h

Reference

@phdthesis{AiThesis,
  author       = {Ai Kagawa},
  title        = {The Rectangular Maximum Agreement Problem: Applications and Parallel Solution},
  school       = {Rutgers University},
  year         = 2018
}