I¹m not sure we support the HCP Pipelines on Mac OS X. You definitely need to be using a bash interpreter.
What issues were you having on Ubuntu? Peace, Matt. On 3/2/18, 10:13 AM, "hcp-users-boun...@humanconnectome.org on behalf of Kwan-Jin Jung" <hcp-users-boun...@humanconnectome.org on behalf of kjj...@umass.edu> wrote: >Hi, > >After I failed to run FreeSurfer pipeline on both Ubuntu and Centos, I >tried it on MacBook. > >It runs without library issues, but it seems to have differences in shell >scripting commands. > >The first example is Œcp¹ which needs to be replaced into Œrsync¹ in both >FreeSurferHiresWhite.sh and FreeSurferHiresPial.sh. > >Then there was another issue in FreeSurferHiresPial.sh at the line #92 of: >"${CARET7DIR}/wb_command -set-structure "$surfdir"/lh.white.surf.gii >CORTEX_LEFT" > >I converted this into: >"open -a ${CARET7DIR}/wb_command -set-structure >"$surfdir"/lh.white.surf.gii CORTEX_LEFT" > >However, I am getting an error of: >"The file /Users/kjjung/MRI/HCP/Practice/CORTEX_LEFT does not exist." > >Does any one know how to fix this issue? > >My MacBook is macOS High Sierra, v10.13.3. > >Kwan-Jin Jung >UMASS Amherst > >_______________________________________________ >HCP-Users mailing list >HCP-Users@humanconnectome.org >http://lists.humanconnectome.org/mailman/listinfo/hcp-users _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users