misc

Author: Remi-Gau

.codespellrc

@@ -1,4 +1,4 @@
 [codespell]
-skip = *.tsv,*.json,*.nii*,*.js,*.svg,*.eps,*.log,.git,env,build,lib,outputs,inputs,bids-examples,stats_model,coverage_html,stats.md,preprocess.md
+skip = *.tsv,*.json,*.nii*,*.js,*.svg,*.eps,*.log,.git,env,build,lib,options,outputs,inputs,bids-examples,stats_model,coverage_html,stats.md,preprocess.md,ds001734
 ignore-words-list = fo,te,als,ane,nin,fot,fwe,commun
 builtin = clear,rare

demos/MoAE/options/options_task-auditory.json

@@ -51,7 +51,7 @@
 
   validationInputFile(bidsDir, 'dataset_description.json');
 
-  BIDS = bids.layout(bidsDir, 'use_schema', opt.useBidsSchema, 'verbose', opt.verbosity > 0);
+  BIDS = bids.layout(bidsDir, 'use_schema', opt.useBidsSchema, 'verbose', opt.verbosity > 1);
 
   if strcmp(opt.pipeline.type, 'stats')
     if exist(fullfile(opt.dir.raw, 'layout.mat'), 'file') == 2
@@ -65,7 +65,7 @@
         BIDS.raw = tmp.BIDS;
       end
     else
-      BIDS.raw = bids.layout(opt.dir.raw);
+      BIDS.raw = bids.layout(opt.dir.raw, 'verbose', opt.verbosity > 1);
     end
   end
 

demos/face_repetition/options/options_task-facerepetition.json

@@ -222,11 +222,19 @@
 end
 
 function targetCondition = returnNameConditionToModulate(thisMod)
+  % list all the conditions that are meant to be modulated
+  % by this parametric modulators
+
   tokens = splitColumnCondtion(thisMod.Conditions);
   targetCondition = tokens;
+
+  % in case we have single condition of the shape
+  % column_name.condition_name
   if numel(tokens) == 1 && size(tokens{1}, 2) > 1
     targetCondition = tokens{1}(2);
   end
+
+  % in case we have more than a single condition of the shape
   if size(tokens, 1) > 1
     for iTargetCondition = 1:size(tokens, 1)
       targetCondition{iTargetCondition} = tokens{iTargetCondition};
@@ -235,12 +243,13 @@
       end
     end
   end
+
 end
 
 function conditionsToModel = parametricModulation(conditionsToModel, tsv, rows, parameMod)
   % parametric modulation (pmod)
   %
-  % skipped if parametric modulation == 1 for all onsets
+  % skipped if parametric modulation amplitude == 1 for all onsets
   %
   % coerces NaNs into 1