I wouldn¹t use hp=pd2 unless you know what you are doing, as that option has not been fully tested. I run with hp=0.
Matt. On 4/13/19, 10:41 AM, "hcp-users-boun...@humanconnectome.org on behalf of Marta Moreno" <hcp-users-boun...@humanconnectome.org on behalf of mmorenoort...@icloud.com> wrote: >Dear Experts, > >I am running the following script MSMAllPipelineBatch.sh from >${StudyFolder}/${Subject}/scripts after running MR ICA+FIX with success, >and I am getting the following error: > >ERROR: failed to open file >'/Volumes/data/data3/NTTMS/NTTMS_s002/NTTMS_s002_170812/MNINonLinear/Resul >ts/RS_fMRI_MR/RS_fMRI_MR_Atlas_hppd2_clean_vn_tempcompute.dscalar.nii', >file does not exist, or folder permissions prevent seeing it > >I set up the script as follow: > >fMRINames="RS_fMRI_MR" >OutfMRIName="RS_fMRI_MR_REST" >HighPass="pd2" >fMRIProcSTRING="_Atlas_hppd2_clean" >MSMAllTemplates="${HCPPIPEDIR}/global/templates/MSMAll" >RegName="MSMAll_InitalReg" >HighResMesh="164" >LowResMesh="32" >InRegName="MSMSulc" >MatlabMode="1" #Mode=0 compiled Matlab, Mode=1 interpreted Matlab > >I checked and the file called: *tempcompute.dscalar.nii¹, is not there. > >What am I doing wrong? Something went wrong in the previous step while >running MR ICA+FIX that I am not aware of? > >Thanks a lot! > >Leah. > > > >_______________________________________________ >HCP-Users mailing list >HCP-Users@humanconnectome.org >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 HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users