Just a warning for users upgrading to Mac OS X 10.11 "El Captain". A new security feature called "System Integrity Protection" prevents Python from directly accessing variables such as DYLD_FALLBACK_LIBRARY_PATH. You may notice that the Python superscripts (e.g. afni_proc.py, align_epi_anat.py) may fail at 3dSkullStrip or 3dAllineate. While running these programs individually will work fine. A workaround (at the sacrifice of some of Apple's intended security) is to disable the new feature by doing the following:

1. Reboot your computer holding Command+R to enter Recovery Mode
2. Under the Utilities Menu select Terminal
3. Run: csrutil disable
4. Reboot

While I've filed bugs to Apple (as have quite a few others on this topic), there may be other workarounds!



Edited 1 time(s). Last edit at 10/07/2015 10:53AM by Peter Molfese.