Echo planar imaging (EPI) sequences, which are frequently used for acquisition of diffusion images, are sensitive to inhomogeneities in the primary magnetic (B0) field that cause localized distortions in the reconstructed images.
Matlab for mac os sierra registration#
Our manuscript describing the registration and distortion correction methods used in the BrainSuite Diffusion Pipeline has been accepted to be published in NeuroImage.īhushan C, Haldar JP, Choi S, Joshi AA, Shattuck DW, and Leahy RM (2015) Co-registration and Distortion Correction of Diffusion and Anatomical Images Based on Inverse Contrast Normalization, NeuroImage 115:269-89.ĭiffusion MRI provides quantitative information about microstructural properties which can be useful in neuroimaging studies of the human brain. New NeuroImage article describing BDP registration and distortion correction If you encounter issues with BrainSuite and Sierra, please share them with us in the BrainSuite forums so we can work to resolve them.
Matlab for mac os sierra update#
We are still working to resolve this more fully, and will update these notes as we find better and more permanent solutions. This will reset the stored settings, and the next time you run the BrainSuite GUI, BrainSuite will search for its required files. Applications/BrainSuite16a1/BrainSuite16a1.app/Contents/MacOS/BrainSuite16a1 ‐‐uninstallĪnd select when prompted. If you have already run BrainSuite, and it now shows strange paths for its files in the BrainSuite Log, you may need to clear the stored file locations. After opening a terminal, run /Applications/BrainSuite16a1/BrainSuite16a1.app/Contents/MacOS/BrainSuite16a1 from the command window. Note that this can only be done with Finder, and not with the bash mv command.Ģ. This will reset the security setting, and enable BrainSuite to run in the correct folder. Using Finder, move the BrainSuite folder out of /Applications/BrainSuite16a1/ to a different location (e.g., the desktop), and then back to /Applications/BrainSuite16a1/.
These include (note that this assumes you have installed BrainSuite16a1 into your /Applications folder):ġ. We are evaluating permanent solutions to this issue, but have explored possible workarounds for users of Sierra. With the Sierra security update, the randomization of the file locations prevents this from working properly. These locations are stored persistently, and reused when the program is launched again. When the BrainSuite GUI is first run, it uses its location to find the locations of its related data and other programs. Specifically, these programs will be run in randomized folder locations rather than their installed location (e.g., BrainSuite will not be run in /Applications/BrainSuite16a1/, but instead it will be run in a folder located in /private/var/folders/). These issues are due to changes in Apple’s security policies, which affect programs that are distributed via the Apple App Store. We are still testing BrainSuite for Sierra, but we have recently been alerted to issues that arise when BrainSuite is installed on MacOS Sierra (10.12).
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