Contents
About the CANlab Core Tools repository and CANlab toolboxes
Dependencies:
Available Toolboxes:
Quick start instructions
mypath = what(fullfile('CanlabCore', 'CanlabCore'));
if isempty(mypath)
disp('Download CanlabCore from Github, and go to that folder in Matlab')
disp('by dragging and dropping it from Finder or Explorer into the Matlab Command Window')
return
end
mypath = mypath(1).path;
base_dir_for_repositories = fileparts(fileparts(mypath));
cd(base_dir_for_repositories)
fprintf('\nInstalling repositories in %s\n', base_dir_for_repositories);
setupfile = fullfile(mypath, 'canlab_toolbox_setup.m');
if ~exist(setupfile, 'file')
disp('Something went wrong. I can''t find canlab_toolbox_setup.m');
disp('This file should be included in the CanlabCore Github repository.')
end
canlab_toolbox_setup
Installing repositories in /Users/torwager/Documents/GitHub
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Checking and/or installing CANlab tools in:
/Users/torwager/Documents/GitHub
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Looking for CANlab repositories and adding to Matlab path:
CANlab core tools - Object-oriented interactive analysis and tools used in other functions CanlabCore
CANlab help examples - Example scripts and html output, second-level analysis batch scripts CANlab_help_examples
MKDA meta-analysis toolbox - Coordinate-based meta-analysis of neuroimaging data Canlab_MKDA_MetaAnalysis
FMRI_simulations - Misc tools for simulating and testing power and image data FMRI_simulations
Private masks and signatures - Selected models shared on request MasksPrivate
M3 Mediation toolbox - Single and Multi-level mediation tools MediationToolbox
Neuroimaging_Pattern_Masks - meta-analysis masks, signatures, parcellations Neuroimaging_Pattern_Masks
Robust regression toolbox - Voxel-wise robust regression for neuroimaging data RobustToolbox
CanlabPrivate - Private repository for lab members and collaborators CanlabPrivate
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Repository: CANlab core tools - Object-oriented interactive analysis and tools used in other functions
Site:CanlabCore
Finding repo: Running command:
find /Users/torwager/Documents/GitHub/CanlabCore -name "fmri_data.m"
Found and added to path with subfolders: /Users/torwager/Documents/GitHub/CanlabCore
-----------------------------------------
Repository: CANlab help examples - Example scripts and html output, second-level analysis batch scripts
Site:CANlab_help_examples
Finding repo: Running command:
find /Users/torwager/Documents/GitHub/CANlab_help_examples -name "a2_second_level_toolbox_check_dependencies.m"
Found and added to path with subfolders: /Users/torwager/Documents/GitHub/CANlab_help_examples
-----------------------------------------
Repository: MKDA meta-analysis toolbox - Coordinate-based meta-analysis of neuroimaging data
Site:Canlab_MKDA_MetaAnalysis
Finding repo: Running command:
find /Users/torwager/Documents/GitHub/Canlab_MKDA_MetaAnalysis -name "i_density.m"
Found and added to path with subfolders: /Users/torwager/Documents/GitHub/Canlab_MKDA_MetaAnalysis
-----------------------------------------
Repository: FMRI_simulations - Misc tools for simulating and testing power and image data
Site:FMRI_simulations
Finding repo: Running command:
find /Users/torwager/Documents/GitHub/FMRI_simulations -name "power_figure3_num_comparisons.m"
Found and added to path with subfolders: /Users/torwager/Documents/GitHub/FMRI_simulations
-----------------------------------------
Repository: Private masks and signatures - Selected models shared on request
Site:MasksPrivate
Finding repo: Running command:
find /Users/torwager/Documents/GitHub/MasksPrivate -name "apply_nps.m"
Found and added to path with subfolders: /Users/torwager/Documents/GitHub/MasksPrivate
-----------------------------------------
Repository: M3 Mediation toolbox - Single and Multi-level mediation tools
Site:MediationToolbox
Finding repo: Running command:
find /Users/torwager/Documents/GitHub/MediationToolbox -name "mediation_brain.m"
Warning: Function vecnorm has the same name as a MATLAB builtin. We
suggest you rename the function to avoid a potential name conflict.
Found and added to path with subfolders: /Users/torwager/Documents/GitHub/MediationToolbox
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Repository: Neuroimaging_Pattern_Masks - meta-analysis masks, signatures, parcellations
Site:Neuroimaging_Pattern_Masks
Finding repo: Running command:
find /Users/torwager/Documents/GitHub/Neuroimaging_Pattern_Masks -name "apply_all_signatures.m"
Found and added to path with subfolders: /Users/torwager/Documents/GitHub/Neuroimaging_Pattern_Masks
-----------------------------------------
Repository: Robust regression toolbox - Voxel-wise robust regression for neuroimaging data
Site:RobustToolbox
Finding repo: Running command:
find /Users/torwager/Documents/GitHub/RobustToolbox -name "robust_results_batch.m"
Found and added to path with subfolders: /Users/torwager/Documents/GitHub/RobustToolbox
-----------------------------------------
Repository: CanlabPrivate - Private repository for lab members and collaborators
Site:CanlabPrivate
Finding repo: Running command:
find /Users/torwager/Documents/GitHub/CanlabPrivate -name "power_calc.m"
Found and added to path with subfolders: /Users/torwager/Documents/GitHub/CanlabPrivate
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All CANlab repositories previously installed. Saving path