add function to resolve absolute path

helps to avoid polluting matlab path with duplicates

Author: Remi-Gau

lib/utils/abspath.m

@@ -0,0 +1,117 @@
+function fpath = abspath(fpath)
+%ABSPATH  Converts path to an absolute path
+%
+%   Converts a relative path from the current working directory to an
+%   absolute path by glueing the pwd and the relative path together and
+%   eliminating relative references like '.' and '..'. If the provided path
+%   is already absolute, only the references like '.' and '..' are removed.
+%
+%   Syntax:
+%   fpath = abspath(fpath)
+%
+%   Input:
+%   fpath   = path to be converted
+%
+%   Output:
+%   fpath   = absolute path
+%
+%   Example
+%   fpath = abspath(fpath)
+%
+%   See also 
+
+%% Copyright notice
+%   --------------------------------------------------------------------
+%   Copyright (C) 2010 Deltares
+%       Bas Hoonhout
+%
+%       [email protected]	
+%
+%       Rotterdamseweg 185
+%       2629HD Delft
+%
+%   This library is free software: you can redistribute it and/or
+%   modify it under the terms of the GNU Lesser General Public
+%   License as published by the Free Software Foundation, either
+%   version 2.1 of the License, or (at your option) any later version.
+%
+%   This library is distributed in the hope that it will be useful,
+%   but WITHOUT ANY WARRANTY; without even the implied warranty of
+%   MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
+%   Lesser General Public License for more details.
+%
+%   You should have received a copy of the GNU Lesser General Public
+%   License along with this library. If not, see <http://www.gnu.org/licenses/>.
+%   --------------------------------------------------------------------
+
+% This tool is part of <a href="http://OpenEarth.nl">OpenEarthTools</a>.
+% OpenEarthTools is an online collaboration to share and manage data and 
+% programming tools in an open source, version controlled environment.
+% Sign up to recieve regular updates of this function, and to contribute 
+% your own tools.
+
+%% Version <http://svnbook.red-bean.com/en/1.5/svn.advanced.props.special.keywords.html>
+% Created: 24 Nov 2010
+% Created with Matlab version: 7.9.0.529 (R2009b)
+
+% $Id$
+% $Date$
+% $Author$
+% $Revision$
+% $HeadURL$
+% $Keywords: $
+
+%% convert to absolute path
+% make sure fileseperators are right
+fpath = fullfile(fpath, '');
+
+% check if path is relative
+isRelative = false;
+if ispc()
+    if length(fpath) < 2 || ...
+            (fpath(2) ~= ':' && ~strcmpi(repmat(filesep,1,2), fpath(1:2)))
+        isRelative = true;
+    end
+elseif isunix()
+    if ~any(strcmp(fpath(1), {filesep '~'}))
+        isRelative = true;
+    end
+else
+    error('Unsupported operating system');
+end
+
+if isRelative
+    fpath = fullfile(pwd, fpath);
+end
+
+if ispc()
+    root  = fpath(1:2);
+    fpath = fpath(3:end);
+elseif isunix()
+    root  = fpath(1);
+    fpath = fpath(2:end);
+end
+
+p = regexp(fpath, filesep, 'split');
+
+% remove '.' elements
+p = p(~strcmp(p, '.'));
+
+% replace relative references
+i = 1;
+while i <= length(p)
+    if strcmp(p{i}, '..')
+        p(i-1:i) = [];
+        i = i-2;
+    end
+    i = i+1;
+end
+
+% glue path together
+fpath = fullfile(root, p{:}, '');
+
+% help unix users
+if isunix && ...
+        (isempty(fpath) || ~strcmp(fpath(1), '~'))
+    fpath = [filesep fpath];
+end

src/utils/checkCppBidsDependencies.m

@@ -22,15 +22,18 @@ function checkCppBidsDependencies(cfg)
     elseif isempty(GITHUB_WORKSPACE)  % local
 
         pth = fullfile(fileparts(mfilename('fullpath')), '..', '..');
+        addpath(fullfile(pth, 'lib', 'utils'));
+        
+        pth = fullfile(fileparts(mfilename('fullpath')), '..', '..');
+        pth = abspath(pth);
+        
         checkSubmodule(fullfile(pth, 'lib', 'JSONio'));
         checkSubmodule(fullfile(pth, 'lib', 'bids-matlab'));
 
-        addpath(fullfile(pth, 'src', 'subfun'));
+        addpath(genpath(fullfile(pth, 'src')));
 
     end
 
-    addpath(fullfile(pth, 'lib', 'utils'));
-
     printCreditsCppBids(cfg);
 
 end