create data folder, stimulus done

CIBIT-UC · Jul 11, 2023 · d380842 · d380842
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diff --git a/README.md b/README.md
@@ -1,7 +1,5 @@
-# public_vpinhibition
-
-# Repository for code - Inhibition Experiment
-Code used for the stimulus and data analysis of the study "**".
+# vpinhibition
+Repository for the code of the Inhibition Experiment
 
 **Authors:** Teresa Sousa, Alexandre Sayal, Ricardo Martins, João Duarte, Gabriel Costa
 
@@ -10,13 +8,17 @@ Visual Perception group at the Coimbra Institute for Biomedical Imaging and Tran
 ---
 
 ## Index
-1. **A_stimulus** - stimulus scripts.
-2. **B_keypress** - scripts for analysing keypress data.
-3. **C_spm_era** - scripts for data analysis with spm.
+1. **scripts-01-protocolcreator** 
+2. **scripts-02-stimulus** - stimulus scripts.
+3. **scripts-03-keypress** - scripts for analysing keypress data.
+4. **scripts-04-eyetracker** - scripts for analysing eyetracker data.
+5. **scripts-05-pipelineA-spm** - scripts for analysing fMRI data with SPM (pipeline A).
+6. **scripts-06-pipelineB-bids** - scripts for organizing fMRI data to BIDS (pipeline B).
+7. **scripts-07-pipelineB-fmriprep** - scripts for running fmriPrep (pipeline B).
+8. **scripts-08-pipelineB-spm** - scripts for analyzing fMRI data with SPM after fmriPrep preprocessing (pipeline B).
 
 ---
 ## Requirements
 - MATLAB 2015b or higher
 - Neuroelf v1.1
 - Psychtoolbox 3
-- Auxiliary files stored in (folder)
diff --git a/...mulus/input/Protocols_RunBehav_D12_R1.mat → ...ut-stimulus/Protocols_RunBehav_D12_R1.mat b/...mulus/input/Protocols_RunBehav_D12_R1.mat → ...ut-stimulus/Protocols_RunBehav_D12_R1.mat
diff --git a/...mulus/input/Protocols_RunBehav_D12_R2.mat → ...ut-stimulus/Protocols_RunBehav_D12_R2.mat b/...mulus/input/Protocols_RunBehav_D12_R2.mat → ...ut-stimulus/Protocols_RunBehav_D12_R2.mat
diff --git a/...mulus/input/Protocols_RunBehav_D12_R3.mat → ...ut-stimulus/Protocols_RunBehav_D12_R3.mat b/...mulus/input/Protocols_RunBehav_D12_R3.mat → ...ut-stimulus/Protocols_RunBehav_D12_R3.mat
diff --git a/...imulus/input/Protocols_RunBehav_D6_R1.mat → ...put-stimulus/Protocols_RunBehav_D6_R1.mat b/...imulus/input/Protocols_RunBehav_D6_R1.mat → ...put-stimulus/Protocols_RunBehav_D6_R1.mat
diff --git a/...imulus/input/Protocols_RunBehav_D6_R2.mat → ...put-stimulus/Protocols_RunBehav_D6_R2.mat b/...imulus/input/Protocols_RunBehav_D6_R2.mat → ...put-stimulus/Protocols_RunBehav_D6_R2.mat
diff --git a/...imulus/input/Protocols_RunBehav_D6_R3.mat → ...put-stimulus/Protocols_RunBehav_D6_R3.mat b/...imulus/input/Protocols_RunBehav_D6_R3.mat → ...put-stimulus/Protocols_RunBehav_D6_R3.mat
diff --git a/...timulus/input/Protocols_RunMRI_D12_R1.mat → ...nput-stimulus/Protocols_RunMRI_D12_R1.mat b/...timulus/input/Protocols_RunMRI_D12_R1.mat → ...nput-stimulus/Protocols_RunMRI_D12_R1.mat
diff --git a/...timulus/input/Protocols_RunMRI_D12_R2.mat → ...nput-stimulus/Protocols_RunMRI_D12_R2.mat b/...timulus/input/Protocols_RunMRI_D12_R2.mat → ...nput-stimulus/Protocols_RunMRI_D12_R2.mat
diff --git a/...timulus/input/Protocols_RunMRI_D12_R3.mat → ...nput-stimulus/Protocols_RunMRI_D12_R3.mat b/...timulus/input/Protocols_RunMRI_D12_R3.mat → ...nput-stimulus/Protocols_RunMRI_D12_R3.mat
diff --git a/...timulus/input/Protocols_RunMRI_D12_R4.mat → ...nput-stimulus/Protocols_RunMRI_D12_R4.mat b/...timulus/input/Protocols_RunMRI_D12_R4.mat → ...nput-stimulus/Protocols_RunMRI_D12_R4.mat
diff --git a/...timulus/input/Protocols_RunMRI_D12_R5.mat → ...nput-stimulus/Protocols_RunMRI_D12_R5.mat b/...timulus/input/Protocols_RunMRI_D12_R5.mat → ...nput-stimulus/Protocols_RunMRI_D12_R5.mat
diff --git a/...timulus/input/Protocols_RunMRI_D12_R6.mat → ...nput-stimulus/Protocols_RunMRI_D12_R6.mat b/...timulus/input/Protocols_RunMRI_D12_R6.mat → ...nput-stimulus/Protocols_RunMRI_D12_R6.mat
diff --git a/...us/output/S01_OUT_1611_12November2018.mat → ...-stimulus/S01_OUT_1611_12November2018.mat b/...us/output/S01_OUT_1611_12November2018.mat → ...-stimulus/S01_OUT_1611_12November2018.mat
diff --git a/scripts-02-stimulus/prt/RunBehav_D12_R1.prt → data/prt/RunBehav_D12_R1.prt b/scripts-02-stimulus/prt/RunBehav_D12_R1.prt → data/prt/RunBehav_D12_R1.prt
diff --git a/scripts-02-stimulus/prt/RunBehav_D12_R2.prt → data/prt/RunBehav_D12_R2.prt b/scripts-02-stimulus/prt/RunBehav_D12_R2.prt → data/prt/RunBehav_D12_R2.prt
diff --git a/scripts-02-stimulus/prt/RunBehav_D12_R3.prt → data/prt/RunBehav_D12_R3.prt b/scripts-02-stimulus/prt/RunBehav_D12_R3.prt → data/prt/RunBehav_D12_R3.prt
diff --git a/scripts-02-stimulus/prt/RunBehav_D6_R1.prt → data/prt/RunBehav_D6_R1.prt b/scripts-02-stimulus/prt/RunBehav_D6_R1.prt → data/prt/RunBehav_D6_R1.prt
diff --git a/scripts-02-stimulus/prt/RunBehav_D6_R2.prt → data/prt/RunBehav_D6_R2.prt b/scripts-02-stimulus/prt/RunBehav_D6_R2.prt → data/prt/RunBehav_D6_R2.prt
diff --git a/scripts-02-stimulus/prt/RunBehav_D6_R3.prt → data/prt/RunBehav_D6_R3.prt b/scripts-02-stimulus/prt/RunBehav_D6_R3.prt → data/prt/RunBehav_D6_R3.prt
diff --git a/scripts-02-stimulus/prt/RunMRI_D12_R1.prt → data/prt/RunMRI_D12_R1.prt b/scripts-02-stimulus/prt/RunMRI_D12_R1.prt → data/prt/RunMRI_D12_R1.prt
diff --git a/scripts-02-stimulus/prt/RunMRI_D12_R2.prt → data/prt/RunMRI_D12_R2.prt b/scripts-02-stimulus/prt/RunMRI_D12_R2.prt → data/prt/RunMRI_D12_R2.prt
diff --git a/scripts-02-stimulus/prt/RunMRI_D12_R3.prt → data/prt/RunMRI_D12_R3.prt b/scripts-02-stimulus/prt/RunMRI_D12_R3.prt → data/prt/RunMRI_D12_R3.prt
diff --git a/scripts-02-stimulus/prt/RunMRI_D12_R4.prt → data/prt/RunMRI_D12_R4.prt b/scripts-02-stimulus/prt/RunMRI_D12_R4.prt → data/prt/RunMRI_D12_R4.prt
diff --git a/scripts-02-stimulus/prt/RunMRI_D12_R5.prt → data/prt/RunMRI_D12_R5.prt b/scripts-02-stimulus/prt/RunMRI_D12_R5.prt → data/prt/RunMRI_D12_R5.prt
diff --git a/scripts-02-stimulus/prt/RunMRI_D12_R6.prt → data/prt/RunMRI_D12_R6.prt b/scripts-02-stimulus/prt/RunMRI_D12_R6.prt → data/prt/RunMRI_D12_R6.prt
diff --git a/scripts-02-stimulus/functions_main/initCrossInhib.m b/scripts-02-stimulus/functions_main/initCrossInhib.m
@@ -51,8 +51,8 @@
 S.height = round(674 * S.factor); % Corresponds to 9 deg in visual angle 
 
 % --- Folders
-S.input_path = fullfile(pwd,'input');
-S.output_path = fullfile(pwd,'output');
+S.input_path = fullfile('..','data','input-stimulus');
+S.output_path = fullfile('..','data','output-stimulus');
 %S.outputImages_path = fullfile(pwd,'outputImages');
 
 % --- Open COM Ports for Response box and Trigger