Hi Veena, Please direct inquiries/questions to the HCP-Users list. There is a bug in the TaskfMRILevel1 script such that it currently expects an F-test (.fts) to be conducted. I’ve fixed that in our dev version, but the easiest thing for you to do is probably to just add an F-test to your Level1 design (which you are then free to ignore).
cheers, -MH -- Michael Harms, Ph.D. ----------------------------------------------------------- Conte Center for the Neuroscience of Mental Disorders 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: Nair Veena <[email protected]<mailto:[email protected]>> Date: Wednesday, May 10, 2017 at 3:44 PM To: Michael Harms <[email protected]<mailto:[email protected]>> Subject: task fMRI analysis on locally collected connectome style data Hello, Michael, I am trying to modify and use the task fMRI script to connectome data collected in our study. It's a simple motor task with 3 blocks of tap and 4 blocks of rest. Following the instructions here https://github.com/Washington-University/Pipelines/wiki/v3.4.0-Release-Notes,-Installation,-and-Usage I modified the the TaskfMRIAnalysisBatch.sh script to change locations for the StudyFolder, Subjlist, and EnvironmentScript variables. I created a .fsf file using FSL and placed it in <StudyFolder>/$subj/MNINonLinear/Results/tfMRI_MOTOR_AP/tfMRI_Motor_AP_hp200_s4_level1.fsf I have also checked that the num volumes in the .fsf file is correct and placed a EV file in the Results sub-directory I am doing only level1 analysis, so I commented out the level2 task lines- #for LevelTwoTask in $LevelTwoTaskList ; do #echo " ${LevelTwoTask}" However, when I run the TaskfMRIAnalysisBtach.sh script it gives me an error. I have attached both the output file and the error file generated during this attempt. The error is --fcon: Missing non-optional argument! try: film_gls --help Please could you let me know what the error is indicating? I have been trying to troubleshoot without success! thank you, Veena ________________________________ 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
