Hi, The FreeSurferFolder is located at $StudyFolder/$Subject/T1w/$Subject, which is what PostFreeSurferPipeline.sh is setting up via the following combination of lines:
FreeSurferFolder="$Subject" #L101 T1wFolder="$StudyFolder"/"$Subject"/"$T1wFolder" #L137 FreeSurferFolder="$T1wFolder"/"$FreeSurferFolder" #L140 Cheers, -MH -- Michael Harms, Ph.D. ----------------------------------------------------------- Associate Professor of Psychiatry Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave. Tel: 314-747-6173 St. Louis, MO 63110 Email: [email protected] From: <[email protected]> on behalf of Shachar Gal <[email protected]> Date: Wednesday, March 20, 2019 at 2:42 PM To: "[email protected]" <[email protected]> Subject: [HCP-Users] PostFreesurfer possible bug Dear experts, in the PostFreeSurferPipeline script, the FreeSurferFolder is set to be "$T1wFolder"/"$FreeSurferFolder" even though, the free surfer folder isnt actually under the T1w folder... its right inside the subject's directory (WorkingDirectory/SubjectNumber/SubjectNumber) is this a bug, or am i missing something? thanks, Shachar Gal _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
