startup.m

% avoid adding all the git directories to the path just by doing it
% manually for now ...
addpath('./algorithms');
addpath('./algorithms/test');
addpath('./algorithms/mex');

addpath('./misc');

addpath('./simulations');
addpath('./simulations/betakernel');
addpath('./simulations/misc');

addpath('./testfiles');

addpath('../minepy/matlab');

% setup for best results on parallel processing
if(ispc)
    myCluster = parcluster('local');
    myCluster.NumWorkers = 8;
    saveProfile(myCluster);
elseif(ismac)
    myCluster = parcluster('local');
    myCluster.NumWorkers = 3;
    saveProfile(myCluster);
elseif(isunix)
    myCluster = parcluster('local');
    myCluster.NumWorkers = 8;
    saveProfile(myCluster);
end

% setup Python in Matlab if it isn't already loaded
if(isunix)
    try
        pyversion /usr/bin/python   % assume python installed in default path
    catch
        try
            pyversion 2.7
        catch
        end
    end
else
    try
        pyversion 2.7   % assume you have Python 2.7 :D
    catch
    end
end

% add the python folder to the PYTHON search path
if count(py.sys.path,'./python') == 0
    insert(py.sys.path,int32(0),'./python');
end

% python module dependencies check
requiredPythonModules = {'numpy', 'matplotlib', 'scipy', 'sklearn', 'cvxopt'};
for ii=1:length(requiredPythonModules)
    modName = requiredPythonModules{ii};
    try
        py.importlib.import_module(modName);
    catch ME
        if (strcmp(ME.identifier,'MATLAB:Python:PyException'))
            warning('Python Error! module: %s required for python extension modules!', modName);
        end
    end
end

% setup R BATCH commands to be callable from Matlab
PATH = getenv('PATH');
z = strsplit(PATH,':');

MAC_R_PATH = '/usr/local/bin';
UNIX_R_PATH = '/usr/bin';
WINDOWS_R_PATH = ''; % ?? -- prompt user?

if(ismac)
    notFound = 1;
    for ii=1:length(z)
        if(strcmp(z{ii},MAC_R_PATH))
            notFound = 0;
            break;
        end
    end
    if(notFound)
        setenv('PATH', [PATH ':' MAC_R_PATH]);
    end
elseif(isunix)
    notFound = 1;
    for ii=1:length(z)
        if(strcmp(z{ii},UNIX_R_PATH))
            notFound = 0;
            break;
        end
    end
    if(notFound)
        setenv('PATH', [PATH ':' UNIX_R_PATH]);
    end
else
    % TODO: add path to R in Windows installation... prompt user?
end

% TODO: Required R-Packages dependency check??
requiredRPackages = {'SAM', 'energy', 'glasso', 'glmnet', ...
                     'pracma', 'pgraph'};