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better error message and looks at BAIR_ANATOMY_PATH environment varia… #2

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better error message and looks at BAIR_ANATOMY_PATH environment varia… #2

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16 changes: 15 additions & 1 deletion bids/bidsInitVista.m
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Original file line number Diff line number Diff line change
Expand Up @@ -36,6 +36,14 @@ function bidsInitVista(projectDir, subject, session, tasks,... % runnums,
% analysisDir = '/Volumes/server/Projects/BAIR/Analyses/tactilepilot/sub-wlsubj063/ses-nyu3t01'
%
% bidsInitVista(projectDir, subject, [] , [], [], analysisDir)
%
% Notes:
%
% If you are running this function on a host with Acadia mounted as something other than
% /Volumes/server, then you should set the environment variable BAIR_ANATOMY_PATH to the
% directory equivalent to /Volumes/server/Projects/Anatomy on Acadia (i.e., the path where
% you store 3DAnatomy directories for VistaSoft).
%

%% Check inputs

Expand Down Expand Up @@ -70,7 +78,13 @@ function bidsInitVista(projectDir, subject, session, tasks,... % runnums,

% Look for anatomy files and make them if they don't exist
if ~exist(fullfile(analysisDir,'3DAnatomy'),'dir')
anatomyPath = fullfile('/Volumes/server/Projects/Anatomy',subject);
% Find the global anatomies directory
globAnatPath = getenv('BAIR_ANATOMY_PATH');
if isempty(globAnatPath), globAnatPath = '/Volumes/server/Projects/Anatomy'; end
if ~exist(globAnatPath, 'dir')
error('Could not find global BAIR anatomy path (expected %s)', globAnatPath);
end
anatomyPath = fullfile(globAnatPath,subject);
if ~exist(anatomyPath, 'dir') ||~exist(fullfile(anatomyPath, anatFile), 'file')...
&& ~exist(fullfile(anatomyPath,classFile), 'file')
mkdir (anatomyPath);
Expand Down