software_setup
====== Differences ====== This shows you the differences between two versions of the page.
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software_setup [2016/08/17 18:32] bdelab |
software_setup [2019/05/15 23:14] (current) thclark [Psychtoolbox for Matlab] |
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| + | ====== Software Setup ====== | ||
| We rely on a number of different software packages to analyze MRI and MEG data. Here is a growing tally of what we use and where to get it. Most of these tools reside on github and you should definitely use git to clone the repositories rather than download a snapshot of the code. | We rely on a number of different software packages to analyze MRI and MEG data. Here is a growing tally of what we use and where to get it. Most of these tools reside on github and you should definitely use git to clone the repositories rather than download a snapshot of the code. | ||
| + | |||
| + | ====I-LABS IT Ticket==== | ||
| + | If you need to submit an IT ticket, do so at [[http://help.ilabs.uw.edu/otrs/customer.pl]]. For help getting an account on this site, contact [[dubinc@uw.edu|Cary Dubinksy]]. | ||
| + | |||
| ====Setting up a user account==== | ====Setting up a user account==== | ||
| To add a new user with sudo privileges (userid should be maintained across all systems). | To add a new user with sudo privileges (userid should be maintained across all systems). | ||
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| <code> | <code> | ||
| cd ~/git | cd ~/git | ||
| - | git clone https://github.com/jyeatman/AFQ.git | + | git clone https://github.com/yeatmanlab/AFQ.git |
| </code> | </code> | ||
| Line 47: | Line 52: | ||
| ====Anaconda==== | ====Anaconda==== | ||
| - | Each user should have anaconda set up to manage their Python packages. Do this before installing nibabel and dipy. Anaconda will manage versions and dependencies for each user separately. Each install will be specific to the user that installs it. Do not install as root, as you will deny yourself privileges to your own directory. You must restart your terminal session after install before using Python or the conda command. See instructions here: https://www.continuum.io/downloads | + | Each user should have anaconda set up to manage their Python packages. **All code for REDCap was written using Python3.** Do this before installing nibabel and dipy. Anaconda will manage versions and dependencies for each user separately. Each install will be specific to the user that installs it. Do not install as root, as you will deny yourself privileges to your own directory. You must restart your terminal session after install before using Python or the conda command. See instructions here: https://www.continuum.io/downloads |
| Line 97: | Line 102: | ||
| <code> | <code> | ||
| cd ~/Downloads | cd ~/Downloads | ||
| - | sudo tar -C /usr/local -xzvf freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0.tar.gz | + | sudo tar -C /usr/local -xzvf freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0.tar.gz |
| </code> | </code> | ||
| You'll need to register [[https://surfer.nmr.mgh.harvard.edu/registration.html|here]]. The registration e-mail will tell you which text to copy into a new file, which you can create/edit by | You'll need to register [[https://surfer.nmr.mgh.harvard.edu/registration.html|here]]. The registration e-mail will tell you which text to copy into a new file, which you can create/edit by | ||
| Line 139: | Line 144: | ||
| ptb3-matlab | ptb3-matlab | ||
| </code> | </code> | ||
| + | |||
software_setup.1471458734.txt.gz ยท Last modified: 2016/08/17 18:32 by bdelab
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