remove parfor loops and workers parpool test

Author: Remi-Gau

src/QA/anatomicalQA.m

@@ -26,7 +26,7 @@ function anatomicalQA(opt)
 
   fprintf(1, ' ANATOMICAL: QUALITY CONTROL\n\n');
 
-  parfor iSub = 1:numel(opt.subjects)
+  for iSub = 1:numel(opt.subjects)
 
     subLabel = opt.subjects{iSub}; %#ok<*PFBNS>
 

src/QA/anatomicalQALesion.m

@@ -27,7 +27,7 @@ function anatomicalQALesion(opt)
 
   fprintf(1, ' ANATOMICAL: QUALITY CONTROL\n\n');
 
-  parfor iSub = 1:numel(opt.subjects)
+  for iSub = 1:numel(opt.subjects)
 
     subID = opt.subjects{iSub};
 

src/defaults/checkOptions.m

@@ -159,7 +159,7 @@
   fieldsToSet.result.Steps = returnDefaultResultsStructure();
 
   fieldsToSet.parallelize.do = false;
-  fieldsToSet.parallelize.nbWorkers = 3;
+  fieldsToSet.parallelize.nbWorkers = 2;
   fieldsToSet.parallelize.killOnExit = false;
 
 end

src/workflows/bidsCopyRawFolder.m

@@ -244,7 +244,7 @@ function unzipFiles(derivativesDir, deleteZippedNii, opt)
 
   zippedNiifiles = spm_select('FPListRec', derivativesDir, '^.*.gz$');
 
-  parfor iFile = 1:size(zippedNiifiles, 1)
+  for iFile = 1:size(zippedNiifiles, 1)
 
     file = deblank(zippedNiifiles(iFile, :));
 

src/workflows/bidsCreateVDM.m

@@ -22,7 +22,7 @@ function bidsCreateVDM(opt)
 
   [BIDS, opt] = setUpWorkflow(opt, 'create voxel displacement map');
 
-  parfor iSub = 1:numel(opt.subjects)
+  for iSub = 1:numel(opt.subjects)
 
     subLabel = opt.subjects{iSub};
 

src/workflows/bidsRealignReslice.m

@@ -16,7 +16,7 @@ function bidsRealignReslice(opt)
 
   [BIDS, opt] = setUpWorkflow(opt, 'realign and reslice');
 
-  parfor iSub = 1:numel(opt.subjects)
+  for iSub = 1:numel(opt.subjects)
 
     subLabel = opt.subjects{iSub};
 

src/workflows/bidsRealignUnwarp.m

@@ -19,7 +19,7 @@ function bidsRealignUnwarp(opt)
 
   [BIDS, opt] = setUpWorkflow(opt, 'realign and unwarp');
 
-  parfor iSub = 1:numel(opt.subjects)
+  for iSub = 1:numel(opt.subjects)
 
     subLabel = opt.subjects{iSub};
 

src/workflows/bidsSTC.m

@@ -31,7 +31,7 @@ function bidsSTC(opt)
 
   [BIDS, opt] = setUpWorkflow(opt, 'slice timing correction');
 
-  parfor iSub = 1:numel(opt.subjects)
+  for iSub = 1:numel(opt.subjects)
 
     subLabel = opt.subjects{iSub};
 

src/workflows/bidsSegmentSkullStrip.m

@@ -17,7 +17,7 @@ function bidsSegmentSkullStrip(opt)
   opt.orderBatches.selectAnat = 1;
   opt.orderBatches.segment = 2;
 
-  parfor iSub = 1:numel(opt.subjects)
+  for iSub = 1:numel(opt.subjects)
 
     subLabel = opt.subjects{iSub};
 

src/workflows/bidsSmoothing.m

@@ -18,7 +18,7 @@ function bidsSmoothing(funcFWHM, opt)
 
   [BIDS, opt] = setUpWorkflow(opt, 'smoothing functional data');
 
-  parfor iSub = 1:numel(opt.subjects)
+  for iSub = 1:numel(opt.subjects)
 
     subLabel = opt.subjects{iSub};