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SoftwareRequired?InstructionsVersion
MATLABYes
  • Install with default options
  • Set startup file to run for all users (star) (see details below)

2014b or later

Toolboxes <required>: database; image processing; signal processing; statistics and machine learning; <optional> parallel processing, optimization

GhostscriptFor CSPM figure printingInstall latest Ghostscript open source software (http://ghostscript.com/download/gsdnld.html)Current (depends on "export_fig" MATLAB add-on requirements)
MySQLYes
  • Uninstall any previous versions; you may want to delete the data (backup the database before), which is in C:\ProgramData\MySQL. The folder is hidden, so type in the address; delete the MySQL folder.
  • Google "mysql community server"; download and run "MySQL Installer"; choose the large file (~270MB in 2014) as this is more reliable than the other. (green star) (see details below)
  • Run the downloaded installer; choose custom installation, and select the 64-bit MySQL Server, the Workbench, and the Connector/J. § (see details below)
  • Choose the default options; write down the password for the "root" account (root is a common term for Administrator account); there is no need to create user accounts.

Latest version; as of writing, we are on version 5.6.

The Workbench is significantly updated as of version 6.1.

OfficeNo - Used for saving subject information, timetrend files, MRI plots, documentationNormal installation.Any version since 2003.
CorelDrawNo - used for saving summaries of plots and MRI figures (check reg)Normal installation (start once, get rid of splash screen)Any recent version
VMware PlayerNo - required for Linux programs (FSL, FreeSurfer)
  • Google VMware Player; you will probably land on the VMware downloads page, which has VMware Player right at the botttom (link on right of page). Download- you probably need to register (but it's free).
  • Normal installation - take defaults.
Version 6 and above
PuTTYNo - required for CSPM to run commands in LinuxGoogle PuTTY, go to the downloads page, choose the Windows installer, install with default options.Any recent version
PythonNo - used for utilities (bruker2nifti for starters)
  • Check you current installation: in MATLAB, type >> pyenv. This will return if installed on the computer, and it will show the version
  • In install or update, go to phython.org, download and install the latest version (see belowdetails)
Depends on python libraries being used
SASNo - used for Repeated Measures ANOVA analysis of fMRI and physiologyStandard installation.Any version.
MRIConvert

No - alternative DICOM converter, may be useful

* dcm2nii that comes with mricron may be better

Install under folder C:\Program FIles (x86)\MRIConvert (win32 version)

Google - as of 2020-07 https://lcni.uoregon.edu/downloads/mriconvert/

Any version

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